diff --git a/modules/nf-core/affy/justrma/templates/affy_justrma.R b/modules/nf-core/affy/justrma/templates/affy_justrma.R
index 7b57dbc8f2b..5ae2dd08ca9 100755
--- a/modules/nf-core/affy/justrma/templates/affy_justrma.R
+++ b/modules/nf-core/affy/justrma/templates/affy_justrma.R
@@ -54,7 +54,7 @@ read_delim_flexible <- function(file, header = TRUE, row.names = NULL){
 #' Install the right CDF for a given cel file
 #'
 #' @param celfile A valid path to a CEL file
-#' @param annotation Boolean indication wheter to install the annotation
+#' @param annotation Boolean indication whether to install the annotation
 #'        package
 #'
 #' @return output The CDF environment or a list detailing the failed locations.
diff --git a/modules/nf-core/agat/spfilterfeaturefromkilllist/meta.yml b/modules/nf-core/agat/spfilterfeaturefromkilllist/meta.yml
index d6c8dbb783a..5ac8ef042ee 100644
--- a/modules/nf-core/agat/spfilterfeaturefromkilllist/meta.yml
+++ b/modules/nf-core/agat/spfilterfeaturefromkilllist/meta.yml
@@ -37,7 +37,7 @@ input:
   - - config:
         type: file
         description: |
-          Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the orignal agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: "agat config --expose". The --config option gives you the possibility to use your own AGAT config file (located elsewhere or named differently).
+          Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the original agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: "agat config --expose". The --config option gives you the possibility to use your own AGAT config file (located elsewhere or named differently).
         pattern: "*.yaml"
 output:
   - gff:
diff --git a/modules/nf-core/agat/spmergeannotations/meta.yml b/modules/nf-core/agat/spmergeannotations/meta.yml
index fd5083b70e5..b2a21e798d4 100644
--- a/modules/nf-core/agat/spmergeannotations/meta.yml
+++ b/modules/nf-core/agat/spmergeannotations/meta.yml
@@ -31,7 +31,7 @@ input:
         type: file
         description: |
           Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any,
-          otherwise it takes the orignal agat_config.yaml shipped with AGAT. To get the agat_config.yaml
+          otherwise it takes the original agat_config.yaml shipped with AGAT. To get the agat_config.yaml
           locally type: "agat config --expose". The --config option gives you the possibility to use your
           own AGAT config file (located elsewhere or named differently).
         pattern: "*.yaml"
diff --git a/modules/nf-core/agrvate/meta.yml b/modules/nf-core/agrvate/meta.yml
index 8b45db81914..e06820223ba 100644
--- a/modules/nf-core/agrvate/meta.yml
+++ b/modules/nf-core/agrvate/meta.yml
@@ -33,12 +33,12 @@ output:
             e.g. [ id:'test', single_end:false ]
       - ${fasta.baseName}-results/${fasta.baseName}-summary.tab:
           type: file
-          description: A summary of the agrvate assessement
+          description: A summary of the agrvate assessment
           pattern: "*-summary.tab"
   - results_dir:
       - ${fasta.baseName}-results:
           type: directory
-          description: Results of the agrvate assessement
+          description: Results of the agrvate assessment
           pattern: "*-results"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/ampcombi/meta.yml b/modules/nf-core/ampcombi/meta.yml
index 152d0b294de..0000f722493 100644
--- a/modules/nf-core/ampcombi/meta.yml
+++ b/modules/nf-core/ampcombi/meta.yml
@@ -155,7 +155,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - amp_ref_database/*.clean.fasta:
           type: file
-          description: AMP reference database fasta file, cleaned of diamond-uncompatible
+          description: AMP reference database fasta file, cleaned of diamond-incompatible
             characters.
           pattern: "/amp_ref_database/*.clean.fasta"
   - results_db_tsv:
diff --git a/modules/nf-core/ampcombi/tests/main.nf.test.snap b/modules/nf-core/ampcombi/tests/main.nf.test.snap
index 4a65913ca45..d6b040bb3d5 100644
--- a/modules/nf-core/ampcombi/tests/main.nf.test.snap
+++ b/modules/nf-core/ampcombi/tests/main.nf.test.snap
@@ -211,18 +211,13 @@
     "ampcombi - metagenome": {
         "content": [
             [
-                "sample_1",
-                "contig_id\ttarget_id\tpident\tevalue\tnident\tfull_qseq\tfull_sseq\tqseq\tsseq\tqcovhsp\tscovhsp",
-                "name,contig_id,prob_ampir,prob_amplify,aa_sequence,target_id,pident,evalue,Sequence,Sequence_Length,Name,Swiss_Prot_Entry,Family,Gene,Source,Activity,Protein_existence,Structure,Structure_Description,PDB_ID,Comments,Target_Organism,Hemolytic_activity,Linear/Cyclic/Branched,N-terminal_Modification,C-terminal_Modification,Other_Modifications,Stereochemistry,Cytotoxicity,Binding_Traget,Pubmed_ID,Reference,Author,Title",
-                ">NODE_737435_length_269_cov_0.887850_1",
-                false,
-                "versions.yml:md5,b9ec8aabc26aa6c5129da76c119e60b0"
+                
             ]
         ],
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
+            "nf-test": "0.9.2",
+            "nextflow": "24.10.2"
         },
-        "timestamp": "2024-04-24T11:13:53.578923548"
+        "timestamp": "2024-12-16T01:41:33.703968736"
     }
 }
\ No newline at end of file
diff --git a/modules/nf-core/ampcombi2/parsetables/meta.yml b/modules/nf-core/ampcombi2/parsetables/meta.yml
index 14a0fd0299d..a8d1a4f7c5b 100644
--- a/modules/nf-core/ampcombi2/parsetables/meta.yml
+++ b/modules/nf-core/ampcombi2/parsetables/meta.yml
@@ -176,7 +176,6 @@ output:
       - amp_${opt_amp_db}_database/*.fasta:
           type: file
           description: AMP reference database fasta file in clean format.
-            characters.
           pattern: "/amp_*_database/*.fasta"
   - db_mmseqs:
       - meta:
diff --git a/modules/nf-core/arriba/download/meta.yml b/modules/nf-core/arriba/download/meta.yml
index bdf542ebce0..d9e28cc0650 100644
--- a/modules/nf-core/arriba/download/meta.yml
+++ b/modules/nf-core/arriba/download/meta.yml
@@ -36,13 +36,13 @@ output:
       - protein_domains*${genome}*.gff3:
           type: file
           description: Protein domain annotations
-          patter: "*.gff3"
+          pattern: "*.gff3"
   - known_fusions:
       - known_fusions*${genome}*.tsv.gz:
           type: file
           description: Arriba is more sensitive to those fusions to improve the detection
             rate of expected or highly relevant events, such as recurrent fusions
-          patter: "*.tsv.gz"
+          pattern: "*.tsv.gz"
   - versions:
       - versions.yml:
           type: file
diff --git a/modules/nf-core/arriba/download/tests/main.nf.test.snap b/modules/nf-core/arriba/download/tests/main.nf.test.snap
index fe9b18b9483..d12a38bbf70 100644
--- a/modules/nf-core/arriba/download/tests/main.nf.test.snap
+++ b/modules/nf-core/arriba/download/tests/main.nf.test.snap
@@ -1,5 +1,5 @@
 {
-    "download": {
+    "test-arriba-download": {
         "content": [
             {
                 "0": [
@@ -35,9 +35,9 @@
             }
         ],
         "meta": {
-            "nf-test": "0.9.0",
-            "nextflow": "24.04.4"
+            "nf-test": "0.9.2",
+            "nextflow": "24.10.2"
         },
-        "timestamp": "2024-10-08T11:12:17.010496"
+        "timestamp": "2024-12-16T01:46:32.110653034"
     }
 }
\ No newline at end of file
diff --git a/modules/nf-core/bakta/bakta/meta.yml b/modules/nf-core/bakta/bakta/meta.yml
index f947e61bcd1..7d734f28129 100644
--- a/modules/nf-core/bakta/bakta/meta.yml
+++ b/modules/nf-core/bakta/bakta/meta.yml
@@ -103,7 +103,7 @@ output:
       - ${prefix}.hypotheticals.tsv:
           type: file
           description: additional information on hypothetical protein CDS as simple human
-            readble tab separated values
+            readable tab separated values
           pattern: "*.hypotheticals.tsv"
   - hypotheticals_faa:
       - meta:
@@ -123,7 +123,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - ${prefix}.tsv:
           type: file
-          description: annotations as simple human readble tab separated values
+          description: annotations as simple human readable tab separated values
           pattern: "*.tsv"
   - txt:
       - meta:
diff --git a/modules/nf-core/bbmap/align/main.nf b/modules/nf-core/bbmap/align/main.nf
index e3fee17d7a3..cbdc9c932c0 100644
--- a/modules/nf-core/bbmap/align/main.nf
+++ b/modules/nf-core/bbmap/align/main.nf
@@ -26,7 +26,7 @@ process BBMAP_ALIGN {
     input = meta.single_end ? "in=${fastq}" : "in=${fastq[0]} in2=${fastq[1]}"
 
     // Set the db variable to reflect the three possible types of reference input: 1) directory
-    // named 'ref', 2) directory named something else (containg a 'ref' subdir) or 3) a sequence
+    // named 'ref', 2) directory named something else (containing a 'ref' subdir) or 3) a sequence
     // file in fasta format
     if ( ref.isDirectory() ) {
         if ( ref ==~ /(.\/)?ref\/?/ ) {
diff --git a/modules/nf-core/bbmap/align/meta.yml b/modules/nf-core/bbmap/align/meta.yml
index 38bd8e141b4..f842a49079e 100644
--- a/modules/nf-core/bbmap/align/meta.yml
+++ b/modules/nf-core/bbmap/align/meta.yml
@@ -31,7 +31,7 @@ input:
         description: |
           Either "ref" a directory containing an index, the name of another directory
           with a "ref" subdirectory containing an index or the name of a fasta formatted
-          nucleotide file containg the reference to map to.
+          nucleotide file containing the reference to map to.
 output:
   - bam:
       - meta:
diff --git a/modules/nf-core/bcftools/convert/meta.yml b/modules/nf-core/bcftools/convert/meta.yml
index 3a1c197bb37..858362cfca3 100644
--- a/modules/nf-core/bcftools/convert/meta.yml
+++ b/modules/nf-core/bcftools/convert/meta.yml
@@ -28,7 +28,7 @@ input:
     - input:
         type: file
         description: |
-          The input format. Each format needs a seperate parameter to be specified in the `args`:
+          The input format. Each format needs a separate parameter to be specified in the `args`:
           - GEN/SAMPLE file: `--gensample2vcf`
           - gVCF file: `--gvcf2vcf`
           - HAP/SAMPLE file: `--hapsample2vcf`
diff --git a/modules/nf-core/bcftools/query/meta.yml b/modules/nf-core/bcftools/query/meta.yml
index 279b3205d6f..8fb6877817d 100644
--- a/modules/nf-core/bcftools/query/meta.yml
+++ b/modules/nf-core/bcftools/query/meta.yml
@@ -24,7 +24,7 @@ input:
     - vcf:
         type: file
         description: |
-          The vcf file to be qeuried.
+          The vcf file to be queried.
         pattern: "*.{vcf.gz, vcf}"
     - tbi:
         type: file
diff --git a/modules/nf-core/bowtie/build/meta.yml b/modules/nf-core/bowtie/build/meta.yml
index a878a5b7038..af84c5cc481 100644
--- a/modules/nf-core/bowtie/build/meta.yml
+++ b/modules/nf-core/bowtie/build/meta.yml
@@ -29,7 +29,7 @@ output:
       - meta:
           type: map
           description: |
-            Groovy Map containing nformation about the genome fasta
+            Groovy Map containing information about the genome fasta
             e.g. [ id:'test' ]
       - bowtie:
           type: file
diff --git a/modules/nf-core/bowtie2/align/meta.yml b/modules/nf-core/bowtie2/align/meta.yml
index f841f781285..7436097b831 100644
--- a/modules/nf-core/bowtie2/align/meta.yml
+++ b/modules/nf-core/bowtie2/align/meta.yml
@@ -104,11 +104,11 @@ output:
   - log:
       - meta:
           type: file
-          description: Aligment log
+          description: Alignment log
           pattern: "*.log"
       - "*.log":
           type: file
-          description: Aligment log
+          description: Alignment log
           pattern: "*.log"
   - fastq:
       - meta:
diff --git a/modules/nf-core/cat/fastq/tests/main.nf.test b/modules/nf-core/cat/fastq/tests/main.nf.test
index f88a78b6ca7..7397fe401a7 100644
--- a/modules/nf-core/cat/fastq/tests/main.nf.test
+++ b/modules/nf-core/cat/fastq/tests/main.nf.test
@@ -1,4 +1,4 @@
-// NOTE The version snaps may not be consistant
+// NOTE The version snaps may not be consistent
 // https://github.com/nf-core/modules/pull/4087#issuecomment-1767948035
 nextflow_process {
 
diff --git a/modules/nf-core/cellranger/count/templates/cellranger_count.py b/modules/nf-core/cellranger/count/templates/cellranger_count.py
index 55f93b61790..41b9bb8fe2c 100644
--- a/modules/nf-core/cellranger/count/templates/cellranger_count.py
+++ b/modules/nf-core/cellranger/count/templates/cellranger_count.py
@@ -21,7 +21,7 @@ def chunk_iter(seq, size):
 
 # get fastqs, ordered by path. Files are staged into
 #   - "fastq_001/{original_name.fastq.gz}"
-#   - "fastq_002/{oritinal_name.fastq.gz}"
+#   - "fastq_002/{original_name.fastq.gz}"
 #   - ...
 # Since we require fastq files in the input channel to be ordered such that a R1/R2 pair
 # of files follows each other, ordering will get us a sequence of [R1, R2, R1, R2, ...]
diff --git a/modules/nf-core/cellsnp/modea/meta.yml b/modules/nf-core/cellsnp/modea/meta.yml
index 886e5300548..1b7fac56905 100644
--- a/modules/nf-core/cellsnp/modea/meta.yml
+++ b/modules/nf-core/cellsnp/modea/meta.yml
@@ -50,7 +50,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - "*.base.vcf.gz":
           type: file
-          description: A VCF file listing genotyped SNPs and aggregated AD & DP infomation
+          description: A VCF file listing genotyped SNPs and aggregated AD & DP information
             (without GT).
           pattern: "*.base.vcf.gz"
   - cell:
@@ -61,7 +61,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - "*.cells.vcf.gz":
           type: file
-          description: A VCF file listing genotyped SNPs and aggregated AD & DP infomation
+          description: A VCF file listing genotyped SNPs and aggregated AD & DP information
             & genotype (GT) information for each cell or sample.
           pattern: "*.cells.vcf.gz"
   - sample:
diff --git a/modules/nf-core/clonalframeml/meta.yml b/modules/nf-core/clonalframeml/meta.yml
index 2696edd872a..fad6a863592 100644
--- a/modules/nf-core/clonalframeml/meta.yml
+++ b/modules/nf-core/clonalframeml/meta.yml
@@ -21,11 +21,11 @@ input:
           e.g. [ id:'test', single_end:false ]
     - newick:
         type: file
-        description: A Newick formated tree based on multiple sequence alignment
+        description: A Newick formatted tree based on multiple sequence alignment
         pattern: "*.{newick,treefile,dnd}"
     - msa:
         type: file
-        description: A multiple seqeunce alignmnet in FASTA format
+        description: A multiple sequence alignment in FASTA format
         pattern: "*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz}"
 output:
   - emsim:
diff --git a/modules/nf-core/concoct/concoct/meta.yml b/modules/nf-core/concoct/concoct/meta.yml
index d47d1672c3b..16f9e589efa 100644
--- a/modules/nf-core/concoct/concoct/meta.yml
+++ b/modules/nf-core/concoct/concoct/meta.yml
@@ -94,7 +94,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*_PCA_transformed_data_gt1000.csv":
           type: file
-          description: Transformed PCA compontent values
+          description: Transformed PCA component values
           pattern: "*_PCA_transformed_data_gt1000.csv"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/concoct/mergecutupclustering/meta.yml b/modules/nf-core/concoct/mergecutupclustering/meta.yml
index 69a839928d4..c5dd704cb25 100644
--- a/modules/nf-core/concoct/mergecutupclustering/meta.yml
+++ b/modules/nf-core/concoct/mergecutupclustering/meta.yml
@@ -37,7 +37,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*.csv":
           type: file
-          description: Cluster assignments per contig part with concensus cluster
+          description: Cluster assignments per contig part with consensus cluster
           pattern: "*.csv"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/cooler/balance/meta.yml b/modules/nf-core/cooler/balance/meta.yml
index ace840ec598..52d9b86d82e 100644
--- a/modules/nf-core/cooler/balance/meta.yml
+++ b/modules/nf-core/cooler/balance/meta.yml
@@ -36,7 +36,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - ${prefix}.${extension}:
           type: file
-          description: Output COOL file balancing weigths
+          description: Output COOL file balancing weights
           pattern: "*.cool"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/coreograph/meta.yml b/modules/nf-core/coreograph/meta.yml
index 4cf3b08ef2f..fa8cf9cfff8 100644
--- a/modules/nf-core/coreograph/meta.yml
+++ b/modules/nf-core/coreograph/meta.yml
@@ -10,7 +10,7 @@ keywords:
   - Cores
 tools:
   - "coreograph":
-      description: "A TMA dearray porgram that uses UNet, a deep learning model, to
+      description: "A TMA dearray program that uses UNet, a deep learning model, to
         identify complete/incomplete tissue cores on a tissue microarray."
       homepage: "https://mcmicro.org/parameters/core.html#coreograph"
       documentation: "https://mcmicro.org/troubleshooting/tuning/coreograph.html"
diff --git a/modules/nf-core/crumble/meta.yml b/modules/nf-core/crumble/meta.yml
index cc63012dd3a..20e6889ed01 100644
--- a/modules/nf-core/crumble/meta.yml
+++ b/modules/nf-core/crumble/meta.yml
@@ -29,7 +29,7 @@ input:
         description: BED file defining regions to keep quality
   - - bedout:
         type: boolean
-        description: set to true to ouput suspicious regions to a BED file
+        description: set to true to output suspicious regions to a BED file
 output:
   - bam:
       - meta:
diff --git a/modules/nf-core/custom/matrixfilter/templates/matrixfilter.R b/modules/nf-core/custom/matrixfilter/templates/matrixfilter.R
index 7e53938a7cb..a6f734eb911 100755
--- a/modules/nf-core/custom/matrixfilter/templates/matrixfilter.R
+++ b/modules/nf-core/custom/matrixfilter/templates/matrixfilter.R
@@ -143,7 +143,7 @@ if (opt\$sample_file != ''){
 
     # If we're not using a sample sheet to select columns, then at least make
     # sure the ones we have are numeric (some upstream things like the RNA-seq
-    # workflow have annotation colummns as well)
+    # workflow have annotation columns as well)
 
     numeric_columns <- unlist(lapply(1:ncol(abundance_matrix), function(x) is.numeric(abundance_matrix[,x])))
     abundance_matrix <- abundance_matrix[,numeric_columns]
diff --git a/modules/nf-core/deeptools/alignmentsieve/meta.yml b/modules/nf-core/deeptools/alignmentsieve/meta.yml
index 37d381ca41d..4e781c61368 100644
--- a/modules/nf-core/deeptools/alignmentsieve/meta.yml
+++ b/modules/nf-core/deeptools/alignmentsieve/meta.yml
@@ -7,7 +7,7 @@ keywords:
   - ATACshift
 tools:
   - deeptools:
-      description: A set of user-friendly tools for normalization and visualzation of
+      description: A set of user-friendly tools for normalization and visualization of
         deep-sequencing data
       homepage: https://deeptools.readthedocs.io/en/develop/content/tools/alignmentSieve.html
       documentation: https://deeptools.readthedocs.io/en/develop/content/tools/alignmentSieve.html
diff --git a/modules/nf-core/deeptools/bamcoverage/meta.yml b/modules/nf-core/deeptools/bamcoverage/meta.yml
index c349bfb9319..08d858d931e 100644
--- a/modules/nf-core/deeptools/bamcoverage/meta.yml
+++ b/modules/nf-core/deeptools/bamcoverage/meta.yml
@@ -7,7 +7,7 @@ keywords:
   - track
 tools:
   - deeptools:
-      description: A set of user-friendly tools for normalization and visualzation of
+      description: A set of user-friendly tools for normalization and visualization of
         deep-sequencing data
       homepage: https://deeptools.readthedocs.io/en/develop/content/tools/bamCoverage.html
       documentation: https://deeptools.readthedocs.io/en/develop/content/tools/bamCoverage.html
diff --git a/modules/nf-core/duphold/main.nf b/modules/nf-core/duphold/main.nf
index 5f64d992a40..af43991008c 100644
--- a/modules/nf-core/duphold/main.nf
+++ b/modules/nf-core/duphold/main.nf
@@ -8,7 +8,7 @@ process DUPHOLD {
         'biocontainers/duphold:0.2.1--h516909a_1' }"
 
     input:
-    tuple val(meta), path(alignment_file), path(alignement_index), path(sv_variants), path(snp_variants), path(snp_variants_index)
+    tuple val(meta), path(alignment_file), path(alignment_index), path(sv_variants), path(snp_variants), path(snp_variants_index)
     path(fasta)
     path(fasta_fai)
 
diff --git a/modules/nf-core/duphold/meta.yml b/modules/nf-core/duphold/meta.yml
index da4d166055f..2fbcb3145c3 100644
--- a/modules/nf-core/duphold/meta.yml
+++ b/modules/nf-core/duphold/meta.yml
@@ -29,7 +29,7 @@ input:
     - alignment_file:
         type: file
         description: file containing alignments
-    - alignement_index:
+    - alignment_index:
         type: file
         description: index of alignment file
     - sv_variants:
diff --git a/modules/nf-core/elprep/filter/meta.yml b/modules/nf-core/elprep/filter/meta.yml
index 2af3b8b1c38..3ba0549140c 100644
--- a/modules/nf-core/elprep/filter/meta.yml
+++ b/modules/nf-core/elprep/filter/meta.yml
@@ -94,7 +94,7 @@ input:
           given file in IGV format.
   - - get_assembly_regions:
         type: boolean
-        description: Get the assembly regions calculated by haplotypecaller to the speficied
+        description: Get the assembly regions calculated by haplotypecaller to the specified
           file in IGV format.
 output:
   - bam:
diff --git a/modules/nf-core/fcsgx/fetchdb/tests/main.nf.test b/modules/nf-core/fcsgx/fetchdb/tests/main.nf.test
index 4b3fc35dcae..d2360c8d0cf 100644
--- a/modules/nf-core/fcsgx/fetchdb/tests/main.nf.test
+++ b/modules/nf-core/fcsgx/fetchdb/tests/main.nf.test
@@ -21,7 +21,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                // Some output files are too large to calcualte MD5sums, so we just list the files in the output directory.
+                // Some output files are too large to calculate MD5sums, so we just list the files in the output directory.
                 { assert snapshot(
                         file(process.out.database.get(0)).list().sort(),
                         process.out.versions
diff --git a/modules/nf-core/fgbio/groupreadsbyumi/meta.yml b/modules/nf-core/fgbio/groupreadsbyumi/meta.yml
index 3e525fd647d..c6d588daf18 100644
--- a/modules/nf-core/fgbio/groupreadsbyumi/meta.yml
+++ b/modules/nf-core/fgbio/groupreadsbyumi/meta.yml
@@ -34,7 +34,7 @@ input:
         type: string
         enum: ["Identity", "Edit", "Adjacency", "Paired"]
         description: |
-          Reguired argument: defines the UMI assignment strategy.
+          Required argument: defines the UMI assignment strategy.
           Must be chosen among: Identity, Edit, Adjacency, Paired.
 output:
   - bam:
diff --git a/modules/nf-core/gatk/realignertargetcreator/meta.yml b/modules/nf-core/gatk/realignertargetcreator/meta.yml
index 789f0b2bf69..063a5c617fd 100644
--- a/modules/nf-core/gatk/realignertargetcreator/meta.yml
+++ b/modules/nf-core/gatk/realignertargetcreator/meta.yml
@@ -79,12 +79,12 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*.intervals":
           type: file
-          description: File containg intervals that represent sites of extant and potential
+          description: File containing intervals that represent sites of extant and potential
             indels.
           pattern: "*.intervals"
       - s:
           type: file
-          description: File containg intervals that represent sites of extant and potential
+          description: File containing intervals that represent sites of extant and potential
             indels.
           pattern: "*.intervals"
   - versions:
diff --git a/modules/nf-core/gatk4/asereadcounter/meta.yml b/modules/nf-core/gatk4/asereadcounter/meta.yml
index 799f9cbed94..81ae7f5929b 100644
--- a/modules/nf-core/gatk4/asereadcounter/meta.yml
+++ b/modules/nf-core/gatk4/asereadcounter/meta.yml
@@ -1,5 +1,5 @@
 name: "gatk4_asereadcounter"
-description: Calculates the allele-specific read counts for alle-specific expression
+description: Calculates the allele-specific read counts for allele-specific expression
   analysis of RNAseq data
 keywords:
   - allele-specific
diff --git a/modules/nf-core/gatk4/createsomaticpanelofnormals/meta.yml b/modules/nf-core/gatk4/createsomaticpanelofnormals/meta.yml
index 45d88c16a08..707c207631f 100644
--- a/modules/nf-core/gatk4/createsomaticpanelofnormals/meta.yml
+++ b/modules/nf-core/gatk4/createsomaticpanelofnormals/meta.yml
@@ -1,5 +1,5 @@
 name: gatk4_createsomaticpanelofnormals
-description: Create a panel of normals contraining germline and artifactual sites
+description: Create a panel of normals constraining germline and artifactual sites
   for use with mutect2.
 keywords:
   - createsomaticpanelofnormals
diff --git a/modules/nf-core/gatk4/genomicsdbimport/meta.yml b/modules/nf-core/gatk4/genomicsdbimport/meta.yml
index 174ae2eb0a8..ba734b288f9 100644
--- a/modules/nf-core/gatk4/genomicsdbimport/meta.yml
+++ b/modules/nf-core/gatk4/genomicsdbimport/meta.yml
@@ -38,7 +38,7 @@ input:
         pattern: "*.interval_list"
     - interval_value:
         type: string
-        description: if an intervals file has not been spcified, the value enetered
+        description: if an intervals file has not been specified, the value entered
           here will be used as an interval via the "-L" argument
         pattern: "example: chr1:1000-10000"
     - wspace:
diff --git a/modules/nf-core/graphtyper/genotype/meta.yml b/modules/nf-core/graphtyper/genotype/meta.yml
index 8e109be90a8..639ff9564fa 100644
--- a/modules/nf-core/graphtyper/genotype/meta.yml
+++ b/modules/nf-core/graphtyper/genotype/meta.yml
@@ -9,7 +9,7 @@ keywords:
 tools:
   - "graphtyper":
       description: A graph-based variant caller capable of genotyping population-scale
-        short read data sets while incoperating previously discovered variants.
+        short read data sets while incorporating previously discovered variants.
       homepage: "https://github.com/DecodeGenetics/graphtyper"
       documentation: "https://github.com/DecodeGenetics/graphtyper/wiki/User-guide"
       tool_dev_url: "https://github.com/DecodeGenetics/graphtyper"
@@ -47,7 +47,7 @@ input:
           e.g. [ id:'genome' ]
     - ref_fai:
         type: file
-        description: Reference index file. This is automatically found based on referece
+        description: Reference index file. This is automatically found based on reference
           input file name.
         pattern: "*.{.fai}"
   - - region_file:
diff --git a/modules/nf-core/graphtyper/vcfconcatenate/meta.yml b/modules/nf-core/graphtyper/vcfconcatenate/meta.yml
index f2512a33616..940de616ee4 100644
--- a/modules/nf-core/graphtyper/vcfconcatenate/meta.yml
+++ b/modules/nf-core/graphtyper/vcfconcatenate/meta.yml
@@ -8,7 +8,7 @@ keywords:
 tools:
   - "graphtyper":
       description: A graph-based variant caller capable of genotyping population-scale
-        short read data sets while incoperating previously discovered variants.
+        short read data sets while incorporating previously discovered variants.
       homepage: "https://github.com/DecodeGenetics/graphtyper"
       documentation: "https://github.com/DecodeGenetics/graphtyper/wiki/User-guide"
       tool_dev_url: "https://github.com/DecodeGenetics/graphtyper"
diff --git a/modules/nf-core/gstama/polyacleanup/meta.yml b/modules/nf-core/gstama/polyacleanup/meta.yml
index 7f7284a7c6e..47c6547b50b 100644
--- a/modules/nf-core/gstama/polyacleanup/meta.yml
+++ b/modules/nf-core/gstama/polyacleanup/meta.yml
@@ -37,7 +37,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*_tama.fa.gz":
           type: file
-          description: The Full Length Non Chimeric reads clened from remaining polyA
+          description: The Full Length Non Chimeric reads cleaned from remaining polyA
             tails. The sequences are in FASTA format compressed with gzip.
           pattern: "*_tama.fa.gz"
   - report:
diff --git a/modules/nf-core/hisat2/align/meta.yml b/modules/nf-core/hisat2/align/meta.yml
index d869c5d567b..3416c87aaa4 100644
--- a/modules/nf-core/hisat2/align/meta.yml
+++ b/modules/nf-core/hisat2/align/meta.yml
@@ -63,7 +63,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*.log":
           type: file
-          description: Aligment log
+          description: Alignment log
           pattern: "*.log"
   - fastq:
       - meta:
diff --git a/modules/nf-core/hmmer/eslreformat/meta.yml b/modules/nf-core/hmmer/eslreformat/meta.yml
index e2104034948..9aa20900133 100644
--- a/modules/nf-core/hmmer/eslreformat/meta.yml
+++ b/modules/nf-core/hmmer/eslreformat/meta.yml
@@ -33,7 +33,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*.*.gz":
           type: file
-          description: Reformated sequence file
+          description: Reformatted sequence file
           pattern: "*.*.gz"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/homer/pos2bed/meta.yml b/modules/nf-core/homer/pos2bed/meta.yml
index 5fc5f9b1db4..5c3fa64b5e7 100644
--- a/modules/nf-core/homer/pos2bed/meta.yml
+++ b/modules/nf-core/homer/pos2bed/meta.yml
@@ -1,5 +1,5 @@
 name: "homer_pos2bed"
-description: Coverting from HOMER peak to BED file formats
+description: Converting from HOMER peak to BED file formats
 keywords:
   - peaks
   - bed
diff --git a/modules/nf-core/humid/meta.yml b/modules/nf-core/humid/meta.yml
index e5fa28df0b8..3444f5c55fe 100644
--- a/modules/nf-core/humid/meta.yml
+++ b/modules/nf-core/humid/meta.yml
@@ -74,7 +74,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - ${prefix}:
           type: directory
-          description: Directory containg statistics file, use for multiqc.
+          description: Directory containing statistics file, use for multiqc.
           pattern: "${prefix}/"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/igv/js/meta.yml b/modules/nf-core/igv/js/meta.yml
index b7f01b44c7f..b12c1f56231 100644
--- a/modules/nf-core/igv/js/meta.yml
+++ b/modules/nf-core/igv/js/meta.yml
@@ -9,7 +9,7 @@ tools:
   - "igv":
       description: |
         Create an embeddable interactive genome browser component.
-        Output files are expected to be present in the same directory as teh genome browser html file.
+        Output files are expected to be present in the same directory as the genome browser html file.
         To visualise it, files have to be served. Check the documentation at:
           https://github.com/igvteam/igv-webapp for an example and
           https://github.com/igvteam/igv.js/wiki/Data-Server-Requirements for server requirements
diff --git a/modules/nf-core/igvreports/main.nf b/modules/nf-core/igvreports/main.nf
index 30e242dcd2d..b47846e444b 100644
--- a/modules/nf-core/igvreports/main.nf
+++ b/modules/nf-core/igvreports/main.nf
@@ -8,7 +8,7 @@ process IGVREPORTS {
         'biocontainers/igv-reports:1.12.0--pyh7cba7a3_0' }"
 
     input:
-    tuple val(meta), path(sites), path(tracks), path(tracks_indicies)
+    tuple val(meta), path(sites), path(tracks), path(tracks_indices)
     tuple val(meta2), path(fasta), path(fai)
 
     output:
diff --git a/modules/nf-core/igvreports/meta.yml b/modules/nf-core/igvreports/meta.yml
index fc1a9f84eaf..e18df544ec8 100644
--- a/modules/nf-core/igvreports/meta.yml
+++ b/modules/nf-core/igvreports/meta.yml
@@ -32,7 +32,7 @@ input:
         description: |
           List of any set of files of the types that IGV can display,
           eg BAM/CRAM, GTF/GFF, VCF, BED, etc
-    - tracks_indicies:
+    - tracks_indices:
         type: file
         description: |
           List of indices for the tracks
diff --git a/modules/nf-core/iqtree/meta.yml b/modules/nf-core/iqtree/meta.yml
index b20bdd88abf..98aa9bedc3d 100644
--- a/modules/nf-core/iqtree/meta.yml
+++ b/modules/nf-core/iqtree/meta.yml
@@ -1,6 +1,6 @@
 name: iqtree
 description: Produces a Newick format phylogeny from a multiple sequence alignment
-  using the maxium likelihood algorithm. Capable of bacterial genome size alignments.
+  using the maximum likelihood algorithm. Capable of bacterial genome size alignments.
 keywords:
   - phylogeny
   - newick
@@ -316,13 +316,13 @@ output:
       - meta:
           type: file
           description: |
-            File containing site-specific subtitution
+            File containing site-specific substitution
             rates determined by maximum likelihood (--mlrate)
           pattern: "*.{mlrate}"
       - "*.mlrate":
           type: file
           description: |
-            File containing site-specific subtitution
+            File containing site-specific substitution
             rates determined by maximum likelihood (--mlrate)
           pattern: "*.{mlrate}"
   - exch_matrix:
diff --git a/modules/nf-core/iqtree/tests/main.nf.test.snap b/modules/nf-core/iqtree/tests/main.nf.test.snap
index 723acaa7ccc..d96ad3a557e 100644
--- a/modules/nf-core/iqtree/tests/main.nf.test.snap
+++ b/modules/nf-core/iqtree/tests/main.nf.test.snap
@@ -99,7 +99,7 @@
             ],
             "SeqIDs\tlh1\tlh2\tlh3\tweight1\tweight2\tweight3\tarea\tcorner",
             [
-                "# Site-specific subtitution rates determined by maximum likelihood",
+                "# Site-specific substitution rates determined by maximum likelihood",
                 "# This file can be read in MS Excel or in R with command:",
                 "#   tab=read.table('test.mlrate',header=TRUE)",
                 "# Columns are tab-separated with following meaning:",
@@ -524,4 +524,4 @@
         },
         "timestamp": "2024-05-28T15:48:14.780175722"
     }
-}
\ No newline at end of file
+}
diff --git a/modules/nf-core/irescue/meta.yml b/modules/nf-core/irescue/meta.yml
index 81e98b011cb..72e9e7bb96d 100644
--- a/modules/nf-core/irescue/meta.yml
+++ b/modules/nf-core/irescue/meta.yml
@@ -74,7 +74,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - ${prefix}/irescue.log:
           type: file
-          description: Text file contianing run informations
+          description: Text file containing run information
           pattern: "${prefix}/irescue.log"
   - tmp:
       - meta:
diff --git a/modules/nf-core/ivar/consensus/meta.yml b/modules/nf-core/ivar/consensus/meta.yml
index afe8a3d6f2d..a9728231fd8 100644
--- a/modules/nf-core/ivar/consensus/meta.yml
+++ b/modules/nf-core/ivar/consensus/meta.yml
@@ -31,7 +31,7 @@ input:
   - - save_mpileup:
         type: boolean
         description: Save mpileup file generated by ivar consensus
-        patter: "*.mpileup"
+        pattern: "*.mpileup"
 output:
   - fasta:
       - meta:
diff --git a/modules/nf-core/ivar/variants/meta.yml b/modules/nf-core/ivar/variants/meta.yml
index 369032bef10..94dbc7841fb 100644
--- a/modules/nf-core/ivar/variants/meta.yml
+++ b/modules/nf-core/ivar/variants/meta.yml
@@ -38,11 +38,11 @@ input:
         description: A GFF file in the GFF3 format can be supplied to specify coordinates
           of open reading frames (ORFs). In absence of GFF file, amino acid translation
           will not be done.
-        patter: "*.gff"
+        pattern: "*.gff"
   - - save_mpileup:
         type: boolean
         description: Save mpileup file generated by ivar variants
-        patter: "*.mpileup"
+        pattern: "*.mpileup"
 output:
   - tsv:
       - meta:
diff --git a/modules/nf-core/kraken2/kraken2/meta.yml b/modules/nf-core/kraken2/kraken2/meta.yml
index 8693764679c..39e3601c872 100644
--- a/modules/nf-core/kraken2/kraken2/meta.yml
+++ b/modules/nf-core/kraken2/kraken2/meta.yml
@@ -84,7 +84,7 @@ output:
           type: file
           description: |
             Kraken2 report containing stats about classified
-            and not classifed reads.
+            and not classified reads.
           pattern: "*.{report.txt}"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/krakentools/extractkrakenreads/meta.yml b/modules/nf-core/krakentools/extractkrakenreads/meta.yml
index b772ba0f5be..1ef1f3c3333 100644
--- a/modules/nf-core/krakentools/extractkrakenreads/meta.yml
+++ b/modules/nf-core/krakentools/extractkrakenreads/meta.yml
@@ -46,7 +46,7 @@ input:
     - report:
         type: file
         description: Optional Kraken2 report containing stats about classified and not
-          classifed reads.
+          classified reads.
         pattern: "*.{report.txt}"
 output:
   - extracted_kraken2_reads:
diff --git a/modules/nf-core/last/dotplot/meta.yml b/modules/nf-core/last/dotplot/meta.yml
index 1bb1460cd69..58579b96a40 100644
--- a/modules/nf-core/last/dotplot/meta.yml
+++ b/modules/nf-core/last/dotplot/meta.yml
@@ -23,7 +23,7 @@ input:
           e.g. `[ id:'sample1', single_end:false ]`
     - maf:
         type: file
-        description: Multiple Aligment Format (MAF) file, compressed with gzip
+        description: Multiple Alignment Format (MAF) file, compressed with gzip
         pattern: "*.{maf.gz}"
     - annot_b:
         type: file
diff --git a/modules/nf-core/last/mafconvert/meta.yml b/modules/nf-core/last/mafconvert/meta.yml
index 0bc690aa766..4b9d2cff8a1 100644
--- a/modules/nf-core/last/mafconvert/meta.yml
+++ b/modules/nf-core/last/mafconvert/meta.yml
@@ -22,7 +22,7 @@ input:
           e.g. `[ id:'sample1', single_end:false ]`
     - maf:
         type: file
-        description: Multiple Aligment Format (MAF) file, optionally compressed with
+        description: Multiple Alignment Format (MAF) file, optionally compressed with
           gzip
         pattern: "*.{maf.gz,maf}"
   - - format:
diff --git a/modules/nf-core/last/mafswap/meta.yml b/modules/nf-core/last/mafswap/meta.yml
index 4b9642a648a..40e5947c55f 100644
--- a/modules/nf-core/last/mafswap/meta.yml
+++ b/modules/nf-core/last/mafswap/meta.yml
@@ -22,7 +22,7 @@ input:
           e.g. `[ id:'sample1', single_end:false ]`
     - maf:
         type: file
-        description: Multiple Aligment Format (MAF) file, optionally compressed with
+        description: Multiple Alignment Format (MAF) file, optionally compressed with
           gzip
         pattern: "*.{maf.gz,maf}"
 output:
@@ -34,7 +34,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - "*.maf.gz":
           type: file
-          description: Multiple Aligment Format (MAF) file, compressed with gzip
+          description: Multiple Alignment Format (MAF) file, compressed with gzip
           pattern: "*.{maf.gz}"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/last/postmask/meta.yml b/modules/nf-core/last/postmask/meta.yml
index 925e07561d2..da8f06841c5 100644
--- a/modules/nf-core/last/postmask/meta.yml
+++ b/modules/nf-core/last/postmask/meta.yml
@@ -23,7 +23,7 @@ input:
           e.g. `[ id:'sample1', single_end:false ]`
     - maf:
         type: file
-        description: Multiple Aligment Format (MAF) file, optionally compressed with
+        description: Multiple Alignment Format (MAF) file, optionally compressed with
           gzip
         pattern: "*.{maf.gz,maf}"
 output:
@@ -35,7 +35,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - "*.maf.gz":
           type: file
-          description: Multiple Aligment Format (MAF) file, compressed with gzip
+          description: Multiple Alignment Format (MAF) file, compressed with gzip
           pattern: "*.{maf.gz}"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/last/split/meta.yml b/modules/nf-core/last/split/meta.yml
index 7864d0fff32..e654b8822a7 100644
--- a/modules/nf-core/last/split/meta.yml
+++ b/modules/nf-core/last/split/meta.yml
@@ -23,7 +23,7 @@ input:
           e.g. `[ id:'sample1', single_end:false ]`
     - maf:
         type: file
-        description: Multiple Aligment Format (MAF) file, compressed with gzip
+        description: Multiple Alignment Format (MAF) file, compressed with gzip
         pattern: "*.{maf.gz}"
 output:
   - maf:
@@ -34,7 +34,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - "*.maf.gz":
           type: file
-          description: Multiple Aligment Format (MAF) file, compressed with gzip
+          description: Multiple Alignment Format (MAF) file, compressed with gzip
           pattern: "*.{maf.gz}"
   - multiqc:
       - meta:
diff --git a/modules/nf-core/mafft/guidetree/main.nf b/modules/nf-core/mafft/guidetree/main.nf
index b616d6fb43d..5a343e411f8 100644
--- a/modules/nf-core/mafft/guidetree/main.nf
+++ b/modules/nf-core/mafft/guidetree/main.nf
@@ -29,7 +29,7 @@ process MAFFT_GUIDETREE {
 
     mv *.tree ${prefix}.dnd.tmp
 
-    # remove all prefices added by mafft which make the output incompatible with other tools
+    # remove all prefixes added by mafft which make the output incompatible with other tools
     awk '{gsub(/[0-9]+_/, ""); print}' ${prefix}.dnd.tmp > ${prefix}.dnd
 
     cat <<-END_VERSIONS > versions.yml
diff --git a/modules/nf-core/mapdamage2/meta.yml b/modules/nf-core/mapdamage2/meta.yml
index f27fc17f131..c16423fb52e 100644
--- a/modules/nf-core/mapdamage2/meta.yml
+++ b/modules/nf-core/mapdamage2/meta.yml
@@ -194,7 +194,7 @@ output:
             ]
       - results_*/*.fasta:
           type: file
-          description: Allignments in a FASTA file, only if flagged by -d.
+          description: Alignments in a FASTA file, only if flagged by -d.
           pattern: "*.{fasta}"
   - folder:
       - meta:
diff --git a/modules/nf-core/mash/dist/meta.yml b/modules/nf-core/mash/dist/meta.yml
index 3b7ce0ad6c7..0b79769f9ba 100644
--- a/modules/nf-core/mash/dist/meta.yml
+++ b/modules/nf-core/mash/dist/meta.yml
@@ -1,5 +1,5 @@
 name: mash_dist
-description: Calculate Mash distances between reference and query seqeunces
+description: Calculate Mash distances between reference and query sequences
 keywords:
   - distance
   - estimate
diff --git a/modules/nf-core/merfin/hist/main.nf b/modules/nf-core/merfin/hist/main.nf
index 76fdf6e12f7..686aa0094f3 100644
--- a/modules/nf-core/merfin/hist/main.nf
+++ b/modules/nf-core/merfin/hist/main.nf
@@ -9,7 +9,7 @@ process MERFIN_HIST {
 
     input:
     tuple val(meta), path(fasta_assembly)   // Required Input -sequence files can be FASTA or FASTQ; uncompressed, gz compressed.
-    tuple val(meta1), path(meryl_db_reads)  // Required readmers (raw reads meryl db). As it comes from another tool, it might be relevant to mantain the meta.
+    tuple val(meta1), path(meryl_db_reads)  // Required readmers (raw reads meryl db). As it comes from another tool, it might be relevant to maintain the meta.
     path(lookup_table)                      // Optional input vector of probabilities (obtained by genomescope2 with parameter --fitted_hist).
     path(seqmers)                           // Optional input for pre-built sequence meryl db (-seqmers).
     val(peak)                               // Required input to hard set copy 1 and infer multiplicity to copy number.
diff --git a/modules/nf-core/merfin/hist/meta.yml b/modules/nf-core/merfin/hist/meta.yml
index ac0bf8f0d6a..2b346a6b890 100644
--- a/modules/nf-core/merfin/hist/meta.yml
+++ b/modules/nf-core/merfin/hist/meta.yml
@@ -67,7 +67,7 @@ output:
             The generated 0-centered k* histogram for sequences in <fasta_assembly.fasta>.
             Positive k* values are expected collapsed copies. Negative k* values are expected
             expanded  copies. Closer to 0 means the expected and found k-mers are well
-            balenced, 1:1.
+            balanced, 1:1.
           pattern: "*.{hist}"
   - log_stderr:
       - meta:
diff --git a/modules/nf-core/merquryfk/merquryfk/meta.yml b/modules/nf-core/merquryfk/merquryfk/meta.yml
index 82bfbec4653..67e680452f4 100644
--- a/modules/nf-core/merquryfk/merquryfk/meta.yml
+++ b/modules/nf-core/merquryfk/merquryfk/meta.yml
@@ -152,7 +152,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - ${prefix}.phased_block.bed:
           type: file
-          description: Assembly kmer positions seperated by block in bed format
+          description: Assembly kmer positions separated by block in bed format
           pattern: "*.phased.block.bed"
   - phased_block_stats:
       - meta:
diff --git a/modules/nf-core/metamaps/classify/meta.yml b/modules/nf-core/metamaps/classify/meta.yml
index 844adc8adef..8131d12ade9 100644
--- a/modules/nf-core/metamaps/classify/meta.yml
+++ b/modules/nf-core/metamaps/classify/meta.yml
@@ -70,7 +70,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*classification_res.EM.reads2Taxon":
           type: file
-          description: Taxon ID assignement of reads
+          description: Taxon ID assignment of reads
           pattern: "*.{classification_res.EM.reads2Taxon}"
   - em:
       - meta:
@@ -110,7 +110,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*classification_res.EM.reads2Taxon.krona":
           type: file
-          description: Taxon ID assignement of reads in Krona format
+          description: Taxon ID assignment of reads in Krona format
           pattern: "*.{classification_res.EM.reads2Taxon.krona}"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/mmseqs/easysearch/meta.yml b/modules/nf-core/mmseqs/easysearch/meta.yml
index acf1b20d4dc..bcfdde9b783 100644
--- a/modules/nf-core/mmseqs/easysearch/meta.yml
+++ b/modules/nf-core/mmseqs/easysearch/meta.yml
@@ -1,6 +1,6 @@
 # yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/yaml-schema.json
 name: "mmseqs_easysearch"
-description: Searches for the sequences of a fasta file in a databse using MMseqs2
+description: Searches for the sequences of a fasta file in a database using MMseqs2
 keywords:
   - protein sequence
   - databases
diff --git a/modules/nf-core/mygene/templates/mygene.py b/modules/nf-core/mygene/templates/mygene.py
index 83bf2175642..9947f2ab4f0 100644
--- a/modules/nf-core/mygene/templates/mygene.py
+++ b/modules/nf-core/mygene/templates/mygene.py
@@ -21,7 +21,7 @@
 
 class Arguments:
     """
-    Parses the argments, including the ones coming from $task.ext.args.
+    Parses the arguments, including the ones coming from $task.ext.args.
     """
 
     def __init__(self) -> None:
diff --git a/modules/nf-core/nacho/qc/tests/main.nf.test b/modules/nf-core/nacho/qc/tests/main.nf.test
index fe4176bdaf1..c9a28ccfea4 100644
--- a/modules/nf-core/nacho/qc/tests/main.nf.test
+++ b/modules/nf-core/nacho/qc/tests/main.nf.test
@@ -42,8 +42,8 @@ nextflow_process {
                     assert nacho_qc_png.get(0).get(1).size() == 16
                     assert nacho_qc_txt.get(0).get(1).size() == 2
                     assert snapshot(
-                        nacho_qc_reports.get(0).get(1).collect { file(it).name }, //undeterministic .html mqc files
-                        nacho_qc_png.get(0).get(1).collect { file(it).name },     //undeterministic .png mqc files
+                        nacho_qc_reports.get(0).get(1).collect { file(it).name }, //indeterministic .html mqc files
+                        nacho_qc_png.get(0).get(1).collect { file(it).name },     //indeterministic .png mqc files
                         nacho_qc_txt.get(0).get(1),                               //stable .txt mqc files
                         versions
                     ).match() }
@@ -85,8 +85,8 @@ nextflow_process {
                     assert nacho_qc_png.get(0).get(1).size() == 16
                     assert nacho_qc_txt.get(0).get(1).size() == 2
                     assert snapshot(
-                        nacho_qc_reports.get(0).get(1).collect { file(it).name }, //undeterministic .html mqc files
-                        nacho_qc_png.get(0).get(1).collect { file(it).name },     //undeterministic .png mqc files
+                        nacho_qc_reports.get(0).get(1).collect { file(it).name }, //indeterministic .html mqc files
+                        nacho_qc_png.get(0).get(1).collect { file(it).name },     //indeterministic .png mqc files
                         nacho_qc_txt.get(0).get(1),                               //stable .txt mqc files
                         versions
                     ).match() }
diff --git a/modules/nf-core/nanoplot/meta.yml b/modules/nf-core/nanoplot/meta.yml
index 8af83355ecd..b9be5d98ad6 100644
--- a/modules/nf-core/nanoplot/meta.yml
+++ b/modules/nf-core/nanoplot/meta.yml
@@ -9,7 +9,7 @@ keywords:
 tools:
   - nanoplot:
       description: |
-        NanoPlot is a tool for ploting long-read sequencing data and
+        NanoPlot is a tool for plotting long-read sequencing data and
         alignment.
       homepage: http://nanoplot.bioinf.be
       documentation: https://github.com/wdecoster/NanoPlot
diff --git a/modules/nf-core/ngsbits/samplegender/meta.yml b/modules/nf-core/ngsbits/samplegender/meta.yml
index fd5a55024c2..5d6bdb58186 100644
--- a/modules/nf-core/ngsbits/samplegender/meta.yml
+++ b/modules/nf-core/ngsbits/samplegender/meta.yml
@@ -47,7 +47,7 @@ input:
         pattern: "*.fai"
   - - method:
         type: string
-        description: The method to use to define the gender (posibilities are 'xy',
+        description: The method to use to define the gender (possibilities are 'xy',
           'hetx' and 'sry')
         pattern: "(xy|hetx|sry)"
 output:
diff --git a/modules/nf-core/ngscheckmate/vafncm/main.nf b/modules/nf-core/ngscheckmate/vafncm/main.nf
index f774d0652ae..32e2187687f 100644
--- a/modules/nf-core/ngscheckmate/vafncm/main.nf
+++ b/modules/nf-core/ngscheckmate/vafncm/main.nf
@@ -28,7 +28,7 @@ process NGSCHECKMATE_VAFNCM {
     cp ${vafs[0]} zzzzzz.vaf
     vaf_ncm.py -I . -O . -N ${prefix} $args
 
-    # remove the existance of the dummy file
+    # remove the existence of the dummy file
     rm zzzzzz.vaf
     sed -i.bak "/zzzzzz/d" ${prefix}_all.txt
 
diff --git a/modules/nf-core/parabricks/README-fq2bam.md b/modules/nf-core/parabricks/README-fq2bam.md
index 61edc01908f..ad9d21921d0 100644
--- a/modules/nf-core/parabricks/README-fq2bam.md
+++ b/modules/nf-core/parabricks/README-fq2bam.md
@@ -1,6 +1,6 @@
 # Parabricks fq2bam
 
-`fq2bam` performs alignment, sorting, (optional) marking of duplicates, and (optional) base quality score recalibration (BQSR). There is no option to control the number of threads used with this tool - all avilable threads on the system are used by default.
+`fq2bam` performs alignment, sorting, (optional) marking of duplicates, and (optional) base quality score recalibration (BQSR). There is no option to control the number of threads used with this tool - all available threads on the system are used by default.
 
 Alignment and coordinate sorting are always performed. Duplicate marking can be performed by passing the option `markdups=true`. Duplicate marking and BQSR can be performed by passing the options `markdups=true` and `known_sites=$KNOWN_SITES_FILE`.
 
diff --git a/modules/nf-core/parabricks/fq2bam/meta.yml b/modules/nf-core/parabricks/fq2bam/meta.yml
index b3e2e7e6ee6..acd5cd0238e 100644
--- a/modules/nf-core/parabricks/fq2bam/meta.yml
+++ b/modules/nf-core/parabricks/fq2bam/meta.yml
@@ -99,7 +99,7 @@ output:
   - duplicate_metrics:
       - duplicate-metrics.txt:
           type: file
-          description: (optional) metrics calculated from marking duplcates in the bam
+          description: (optional) metrics calculated from marking duplicates in the bam
             file
           pattern: "*-duplicate-metrics.txt"
 authors:
diff --git a/modules/nf-core/parabricks/fq2bammeth/meta.yml b/modules/nf-core/parabricks/fq2bammeth/meta.yml
index 4f295b8806e..5d1cc8df6cd 100644
--- a/modules/nf-core/parabricks/fq2bammeth/meta.yml
+++ b/modules/nf-core/parabricks/fq2bammeth/meta.yml
@@ -80,7 +80,7 @@ output:
   - duplicate_metrics:
       - duplicate-metrics.txt:
           type: file
-          description: (optional) metrics calculated from marking duplcates in the bam
+          description: (optional) metrics calculated from marking duplicates in the bam
             file
           pattern: "*-duplicate-metrics.txt"
   - versions:
diff --git a/modules/nf-core/parabricks/mutectcaller/meta.yml b/modules/nf-core/parabricks/mutectcaller/meta.yml
index e3c2a37e0ff..baa6ab3e318 100644
--- a/modules/nf-core/parabricks/mutectcaller/meta.yml
+++ b/modules/nf-core/parabricks/mutectcaller/meta.yml
@@ -55,11 +55,11 @@ input:
         pattern: "*.fasta"
   - - panel_of_normals:
         type: file
-        description: (Optional) pannel of normals file.
+        description: (Optional) panel of normals file.
         pattern: "*.vcf.gz"
   - - panel_of_normals_index:
         type: file
-        description: (Optional) tbi index corresponding to pannel of normals file.
+        description: (Optional) tbi index corresponding to panel of normals file.
         pattern: "*.tbi"
 output:
   - vcf:
@@ -70,7 +70,7 @@ output:
             e.g. [ id:'test' ]
       - "*.vcf.gz":
           type: file
-          description: Compressed variants file. Will include an annoted vcf file if pannel
+          description: Compressed variants file. Will include an annotated vcf file if panel
             of normals is used.
           pattern: "*.vcf.gz"
   - stats:
diff --git a/modules/nf-core/pbccs/meta.yml b/modules/nf-core/pbccs/meta.yml
index 28c53ac0a1d..3d71c10bd79 100644
--- a/modules/nf-core/pbccs/meta.yml
+++ b/modules/nf-core/pbccs/meta.yml
@@ -1,5 +1,5 @@
 name: pbccs
-description: Pacbio ccs - Generate Higly Accurate Single-Molecule Consensus Reads
+description: Pacbio ccs - Generate Highly Accurate Single-Molecule Consensus Reads
 keywords:
   - ccs
   - pacbio
diff --git a/modules/nf-core/popscle/demuxlet/meta.yml b/modules/nf-core/popscle/demuxlet/meta.yml
index 3ffb07b9f6e..1a8129ae9d8 100644
--- a/modules/nf-core/popscle/demuxlet/meta.yml
+++ b/modules/nf-core/popscle/demuxlet/meta.yml
@@ -11,7 +11,7 @@ keywords:
 tools:
   - "popscle":
       description: "A suite of population scale analysis tools for single-cell genomics
-        data including implementation of Demuxlet / Freemuxlet methods and auxilary
+        data including implementation of Demuxlet / Freemuxlet methods and auxiliary
         tools"
       homepage: "https://github.com/statgen/popscle"
       documentation: "https://github.com/statgen/popscle"
diff --git a/modules/nf-core/popscle/dscpileup/meta.yml b/modules/nf-core/popscle/dscpileup/meta.yml
index 70442d830f0..3c95caa5579 100644
--- a/modules/nf-core/popscle/dscpileup/meta.yml
+++ b/modules/nf-core/popscle/dscpileup/meta.yml
@@ -11,7 +11,7 @@ keywords:
 tools:
   - "popscle":
       description: "A suite of population scale analysis tools for single-cell genomics
-        data including implementation of Demuxlet / Freemuxlet methods and auxilary
+        data including implementation of Demuxlet / Freemuxlet methods and auxiliary
         tools"
       homepage: "https://github.com/statgen/popscle"
       documentation: "https://github.com/statgen/popscle"
diff --git a/modules/nf-core/popscle/freemuxlet/meta.yml b/modules/nf-core/popscle/freemuxlet/meta.yml
index dffcd3431dc..ff28e1dc5b8 100644
--- a/modules/nf-core/popscle/freemuxlet/meta.yml
+++ b/modules/nf-core/popscle/freemuxlet/meta.yml
@@ -11,7 +11,7 @@ keywords:
 tools:
   - "popscle":
       description: "A suite of population scale analysis tools for single-cell genomics
-        data including implementation of Demuxlet / Freemuxlet methods and auxilary
+        data including implementation of Demuxlet / Freemuxlet methods and auxiliary
         tools"
       homepage: "https://github.com/statgen/popscle"
       documentation: "https://github.com/statgen/popscle"
diff --git a/modules/nf-core/popscle/freemuxlet/tests/main.nf.test b/modules/nf-core/popscle/freemuxlet/tests/main.nf.test
index e8c2225c6e7..baf642e5546 100644
--- a/modules/nf-core/popscle/freemuxlet/tests/main.nf.test
+++ b/modules/nf-core/popscle/freemuxlet/tests/main.nf.test
@@ -50,7 +50,7 @@ nextflow_process {
 
     }
 
-    test("demultiplexing - auxilary - files") {
+    test("demultiplexing - auxiliary - files") {
         config "./nextflow.config"
         setup { 
             run("POPSCLE_DSCPILEUP") {
@@ -135,7 +135,7 @@ nextflow_process {
 
     }
 
-    test("demultiplexing - auxilary - files - stub") {
+    test("demultiplexing - auxiliary - files - stub") {
 
         options "-stub"
         config "./nextflow.config"
diff --git a/modules/nf-core/propr/logratio/meta.yml b/modules/nf-core/propr/logratio/meta.yml
index 30f8ac887ff..3a28a53c828 100644
--- a/modules/nf-core/propr/logratio/meta.yml
+++ b/modules/nf-core/propr/logratio/meta.yml
@@ -28,7 +28,7 @@ input:
         type: file
         description: |
           Count matrix, where rows = variables or genes, columns = samples or cells.
-          This matrix should not contain zeros. Otherwise, they will be first replaced by the minimun value.
+          This matrix should not contain zeros. Otherwise, they will be first replaced by the minimum value.
           You may want to handle the zeros with a different method beforehand.
         pattern: "*.{csv,tsv}"
 output:
diff --git a/modules/nf-core/propr/logratio/templates/logratio.R b/modules/nf-core/propr/logratio/templates/logratio.R
index 9f2315da586..6d4dff0d735 100644
--- a/modules/nf-core/propr/logratio/templates/logratio.R
+++ b/modules/nf-core/propr/logratio/templates/logratio.R
@@ -67,7 +67,7 @@ read_delim_flexible <- function(file, header = TRUE, row.names = 1, check.names
 #' Check if a variable can be numeric or not
 #'
 #' @param x Input variable
-#' @retur True if it can be numeric, False otherwise
+#' @return True if it can be numeric, False otherwise
 can_be_numeric <- function(x) {
     stopifnot(is.atomic(x) || is.list(x)) # check if x is a vector
     numNAs <- sum(is.na(x))
@@ -223,7 +223,7 @@ mat <- t(mat)
 # check zeros
 # log transformation should be applied on non-zero data
 # otherwise Inf values are generated
-if (any(mat == 0)) print("Zeros will be replaced by minimun value before logratio analysis")
+if (any(mat == 0)) print("Zeros will be replaced by minimum value before logratio analysis")
 
 
 # compute ALR/CLR
diff --git a/modules/nf-core/propr/propd/templates/propd.R b/modules/nf-core/propr/propd/templates/propd.R
index f9102096b61..d75e3d2c439 100644
--- a/modules/nf-core/propr/propd/templates/propd.R
+++ b/modules/nf-core/propr/propd/templates/propd.R
@@ -471,7 +471,7 @@ if (opt\$permutation == 0) {
             window_size=1
         )
 
-        # update maximun theta value to test the FDR values for the next iteration
+        # update maximum theta value to test the FDR values for the next iteration
 
         part <- pd@fdr[which(pd@fdr\$truecounts > 0),]
         max_cutoff <- ifelse(nrow(part) > 1, min(part\$cutoff), 0)
diff --git a/modules/nf-core/propr/propr/meta.yml b/modules/nf-core/propr/propr/meta.yml
index cdfc5982b72..b4d7d460126 100644
--- a/modules/nf-core/propr/propr/meta.yml
+++ b/modules/nf-core/propr/propr/meta.yml
@@ -38,7 +38,7 @@ input:
         type: file
         description: |
           Count matrix, where rows = variables or genes, columns = samples or cells.
-          This matrix should not contain zeros. Otherwise, they will be replaced by the minimun number.
+          This matrix should not contain zeros. Otherwise, they will be replaced by the minimum number.
           It is recommended to handle the zeros beforehand with the method of preference.
         pattern: "*.{csv,tsv}"
 output:
diff --git a/modules/nf-core/propr/propr/templates/propr.R b/modules/nf-core/propr/propr/templates/propr.R
index a9dbd7bddca..fbd725a2a8a 100644
--- a/modules/nf-core/propr/propr/templates/propr.R
+++ b/modules/nf-core/propr/propr/templates/propr.R
@@ -96,7 +96,7 @@ set_reference <- function(ivar, mat){
     return(ivar)
 }
 
-#' Set the appropiate range for the sequence of cutoffs used in updateCutoffs.
+#' Set the appropriate range for the sequence of cutoffs used in updateCutoffs.
 #' Adjusts the interval to the different metrics.
 #'
 #' @param object propr object. Output from propr function.
@@ -140,7 +140,7 @@ valCutoff  <- function(object, metric, fdrVal = 0.05){
             cutoff <- fdr_df\$cutoff[which(fdr_df\$FDR == fdr_threshold)] #select the corresponding cutoff value for the FDR
             print(cutoff)
         }else{
-            stop("FDR not defined. This metric is not appropiate for the given dataset")
+            stop("FDR not defined. This metric is not appropriate for the given dataset")
         }
     return(cutoff)
     }
@@ -279,7 +279,7 @@ mat <- t(mat)
 # check zeros
 # log transformation should be applied on non-zero data
 # otherwise Inf values are generated
-if (any(mat == 0)) print("Warning: Zeros will be replaced by minimun value before logratio analysis")
+if (any(mat == 0)) print("Warning: Zeros will be replaced by minimum value before logratio analysis")
 
 # set logratio transformation parameter -> ivar
 # if alr, set the index of the reference gene as ivar
diff --git a/modules/nf-core/quartonotebook/main.nf b/modules/nf-core/quartonotebook/main.nf
index f3f960533f9..609098e0277 100644
--- a/modules/nf-core/quartonotebook/main.nf
+++ b/modules/nf-core/quartonotebook/main.nf
@@ -33,7 +33,7 @@ process QUARTONOTEBOOK {
     script:
     // FIXME https://github.com/nf-core/modules/issues/7006
     // Exit if running this module with -profile conda / -profile mamba on ARM64
-    // This is because of issues with getting a homogenous environment across
+    // This is because of issues with getting a homogeneous environment across
     // both AMD64 and ARM64 architectures; please find more information at
     // https://github.com/nf-core/modules/pull/4876#discussion_r1483541037.
     if (workflow.profile.tokenize(',').intersect(['conda', 'mamba']).size() >= 1) {
diff --git a/modules/nf-core/quilt/quilt/meta.yml b/modules/nf-core/quilt/quilt/meta.yml
index 958d39cbdd4..057bc7499c5 100644
--- a/modules/nf-core/quilt/quilt/meta.yml
+++ b/modules/nf-core/quilt/quilt/meta.yml
@@ -83,7 +83,7 @@ input:
     - posfile:
         type: file
         description: (Optional) File with positions of where to impute, lining up one-to-one
-          with genfile. File is tab seperated with no header, one row per SNP, with
+          with genfile. File is tab separated with no header, one row per SNP, with
           col 1 = chromosome, col 2 = physical position (sorted from smallest to largest),
           col 3 = reference base, col 4 = alternate base. Bases are capitalized.
         pattern: "*.{txt}"
@@ -91,7 +91,7 @@ input:
         type: file
         description: (Optional) File with truth phasing results. Supersedes genfile
           if both options given. File has a header row with a name for each sample,
-          matching what is found in the bam file. Each subject is then a tab seperated
+          matching what is found in the bam file. Each subject is then a tab separated
           column, with 0 = ref and 1 = alt, separated by a vertical bar |, e.g. 0|0
           or 0|1. Note therefore this file has one more row than posfile which has no
           header.
diff --git a/modules/nf-core/ribotish/predict/meta.yml b/modules/nf-core/ribotish/predict/meta.yml
index e8016a2c9d8..672bef6b29d 100644
--- a/modules/nf-core/ribotish/predict/meta.yml
+++ b/modules/nf-core/ribotish/predict/meta.yml
@@ -70,7 +70,7 @@ input:
   - - meta5:
         type: map
         description: |
-          Groovy Map containing information on riboseq P-site offfset parameter
+          Groovy Map containing information on riboseq P-site offset parameter
           files
     - para_ribo:
         type: file
@@ -80,7 +80,7 @@ input:
   - - meta6:
         type: map
         description: |
-          Groovy Map containing information on TI-seq P-site offfset parameter
+          Groovy Map containing information on TI-seq P-site offset parameter
           files
     - para_ti:
         type: file
diff --git a/modules/nf-core/ribowaltz/meta.yml b/modules/nf-core/ribowaltz/meta.yml
index 39f4d836a02..7f0aa25b7d6 100644
--- a/modules/nf-core/ribowaltz/meta.yml
+++ b/modules/nf-core/ribowaltz/meta.yml
@@ -78,7 +78,7 @@ output:
             e.g. `[ id:'sample1', single_end:false ]`
       - offset_plot/*:
           type: file
-          description: P-site offset plots for each read length (otional)
+          description: P-site offset plots for each read length (optional)
           pattern: "offset_plot/*"
   - psites:
       - meta:
diff --git a/modules/nf-core/ribowaltz/templates/ribowaltz.r b/modules/nf-core/ribowaltz/templates/ribowaltz.r
index 50d5f1719e9..e9fbc12da18 100644
--- a/modules/nf-core/ribowaltz/templates/ribowaltz.r
+++ b/modules/nf-core/ribowaltz/templates/ribowaltz.r
@@ -100,8 +100,8 @@ export_codon_coverage_tables <- function(sample_name, df.ls, annotation.df) {
 #' @param sample_name string specifying the sample name associated with the BAM file
 #' @param cds_coverage dataframe produced by the riboWaltz cds_coverage function with P-sites counts over the entire CDS of transcripts
 #' @param cds_window_coverage dataframe produced by the riboWaltz cds_coverage function with P-sites counts over the defined CDS window of transcripts using the start_nts and stop_nts params
-#' @param exclude_start number of nucleotides from start codon that were excluded when defining the CDS window for counting (provide same calue as start_nts param)
-#' @param exclude_stop number of nucleotides from stop codon that were excluded when defining the CDS window for counting (provide same calue as stop_nts param)
+#' @param exclude_start number of nucleotides from start codon that were excluded when defining the CDS window for counting (provide same value as start_nts param)
+#' @param exclude_stop number of nucleotides from stop codon that were excluded when defining the CDS window for counting (provide same value as stop_nts param)
 #'
 #' @return This function does not return a value. It creates and saves two TSV files to disk.
 
@@ -119,7 +119,7 @@ export_cds_coverage_tables <- function(sample_name, cds_coverage, cds_window_cov
 #' Export plots read-length distribution of reads used for P-site offset identification produced by the `riboWaltz::rlength_distr` function
 #'
 #' @param sample_name string specifying the sample name associated with the BAM file
-#' @param df_list dataframe list containig data for all samples
+#' @param df_list dataframe list containing data for all samples
 #'
 #' @return This function does not return a value. It creates and saves a PDF file to disk.
 
@@ -556,7 +556,7 @@ lapply(sample_name.ls, save_metaprofile_psite_plot, df.ls = filtered_psite.ls, a
 # Codon usage
 lapply(names(filtered_psite.ls), plot_codon_usage, psite_info_ls = filtered_psite.ls, frequency_normalization = opt\$frequency_normalization)
 
-message("riboWaltz analysis succesfully completed!")
+message("riboWaltz analysis successfully completed!")
 
 # =========
 # Export versions
diff --git a/modules/nf-core/rseqc/tin/meta.yml b/modules/nf-core/rseqc/tin/meta.yml
index 6e363ecd83e..29fa68b32ea 100644
--- a/modules/nf-core/rseqc/tin/meta.yml
+++ b/modules/nf-core/rseqc/tin/meta.yml
@@ -1,5 +1,5 @@
 name: rseqc_tin
-description: Calculte TIN (transcript integrity number) from RNA-seq reads
+description: Calculate TIN (transcript integrity number) from RNA-seq reads
 keywords:
   - rnaseq
   - transcript
diff --git a/modules/nf-core/rtgtools/vcfeval/meta.yml b/modules/nf-core/rtgtools/vcfeval/meta.yml
index 4c59bab5216..12b14df2e81 100644
--- a/modules/nf-core/rtgtools/vcfeval/meta.yml
+++ b/modules/nf-core/rtgtools/vcfeval/meta.yml
@@ -38,7 +38,7 @@ input:
         pattern: "*.{vcf.gz.tbi, vcf.tbi}"
     - truth_bed:
         type: file
-        description: A BED file containining the strict regions where VCFeval should
+        description: A BED file containing the strict regions where VCFeval should
           only evaluate the fully overlapping variants (optional)
           This input should be used to provide the golden truth BED files.
         pattern: "*.bed"
diff --git a/modules/nf-core/sam2lca/analyze/meta.yml b/modules/nf-core/sam2lca/analyze/meta.yml
index c3152c780d3..bc09b8f0ee6 100644
--- a/modules/nf-core/sam2lca/analyze/meta.yml
+++ b/modules/nf-core/sam2lca/analyze/meta.yml
@@ -64,7 +64,7 @@ output:
       - "*.bam":
           type: file
           description: Optional sorted BAM/CRAM/SAM file annotated with LCA taxonomic
-            informations
+            information
           pattern: "*.bam"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/scoary/meta.yml b/modules/nf-core/scoary/meta.yml
index 507bd22efcd..f87c9014377 100644
--- a/modules/nf-core/scoary/meta.yml
+++ b/modules/nf-core/scoary/meta.yml
@@ -29,7 +29,7 @@ input:
         pattern: "*.csv"
   - - tree:
         type: file
-        description: A Newick formtted tree for phylogenetic analyses
+        description: A Newick formatted tree for phylogenetic analyses
         pattern: "*.{dnd,nwk,treefile}"
 output:
   - csv:
diff --git a/modules/nf-core/sentieon/datametrics/meta.yml b/modules/nf-core/sentieon/datametrics/meta.yml
index 2b59da39c8a..91c60b756ac 100644
--- a/modules/nf-core/sentieon/datametrics/meta.yml
+++ b/modules/nf-core/sentieon/datametrics/meta.yml
@@ -122,7 +122,7 @@ output:
             e.g. `[ id:'test', single_end:false ]`
       - "*mq_metrics.pdf":
           type: file
-          description: "PDF containting plot of mean base quality scores"
+          description: "PDF containing plot of mean base quality scores"
           pattern: "*.pdf"
   - qd_plot:
       - meta:
@@ -132,7 +132,7 @@ output:
             e.g. `[ id:'test', single_end:false ]`
       - "*qd_metrics.pdf":
           type: file
-          description: "PDF containting plot of specific base quality score"
+          description: "PDF containing plot of specific base quality score"
           pattern: "*.pdf"
   - is_plot:
       - meta:
@@ -142,7 +142,7 @@ output:
             e.g. `[ id:'test', single_end:false ]`
       - "*is_metrics.pdf":
           type: file
-          description: "PDF containting plot of insert sizes"
+          description: "PDF containing plot of insert sizes"
           pattern: "*.pdf"
   - gc_plot:
       - meta:
@@ -152,7 +152,7 @@ output:
             e.g. `[ id:'test', single_end:false ]`
       - "*gc_metrics.pdf":
           type: file
-          description: "PDF containting plot of GC bias"
+          description: "PDF containing plot of GC bias"
           pattern: "*.pdf"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/sentieon/gvcftyper/tests/nextflow.config b/modules/nf-core/sentieon/gvcftyper/tests/nextflow.config
index 1561a7c4d2d..0b55bb5ec25 100644
--- a/modules/nf-core/sentieon/gvcftyper/tests/nextflow.config
+++ b/modules/nf-core/sentieon/gvcftyper/tests/nextflow.config
@@ -4,7 +4,7 @@ env {
     // NOTE This should only happen in GitHub actions or nf-core MegaTests
     SENTIEON_AUTH_MECH = "$SENTIEON_AUTH_MECH"
     SENTIEON_AUTH_DATA = secrets.SENTIEON_AUTH_DATA
-    // NOTE This is how pipepline users will test out Sentieon with a license file
+    // NOTE This is how pipeline users will test out Sentieon with a license file
     // nextflow secrets set SENTIEON_LICENSE_BASE64 \$(cat <sentieon_license_file.lic> | base64 -w 0)
 }
 
diff --git a/modules/nf-core/sentieon/qualcal/tests/nextflow.config b/modules/nf-core/sentieon/qualcal/tests/nextflow.config
index f168bad2d64..c1e9e48648c 100644
--- a/modules/nf-core/sentieon/qualcal/tests/nextflow.config
+++ b/modules/nf-core/sentieon/qualcal/tests/nextflow.config
@@ -4,6 +4,6 @@ env {
     // NOTE This should only happen in GitHub actions or nf-core MegaTests
     SENTIEON_AUTH_MECH = "$SENTIEON_AUTH_MECH"
     SENTIEON_AUTH_DATA = secrets.SENTIEON_AUTH_DATA
-    // NOTE This is how pipepline users will test out Sentieon with a license file
+    // NOTE This is how pipeline users will test out Sentieon with a license file
     // nextflow secrets set SENTIEON_LICENSE_BASE64 \$(cat <sentieon_license_file.lic> | base64 -w 0)
 }
diff --git a/modules/nf-core/seqkit/grep/meta.yml b/modules/nf-core/seqkit/grep/meta.yml
index 309f8197486..8148cb88dd6 100644
--- a/modules/nf-core/seqkit/grep/meta.yml
+++ b/modules/nf-core/seqkit/grep/meta.yml
@@ -31,7 +31,7 @@ input:
         type: file
         description: >
           pattern file (one record per line). If no pattern is given, a string can be
-          specificied within the args using '-p pattern_string'
+          specified within the args using '-p pattern_string'
         pattern: "*.{txt,tsv}"
 output:
   - filter:
diff --git a/modules/nf-core/seqsero2/meta.yml b/modules/nf-core/seqsero2/meta.yml
index 9761dd7b651..a28831475a1 100644
--- a/modules/nf-core/seqsero2/meta.yml
+++ b/modules/nf-core/seqsero2/meta.yml
@@ -22,7 +22,7 @@ input:
           e.g. [ id:'test', single_end:false ]
     - seqs:
         type: file
-        description: FASTQ or FASTA formated sequences
+        description: FASTQ or FASTA formatted sequences
         pattern: "*.{fq.gz,fastq.gz,fna.gz,fna,fasta.gz,fasta,fa.gz,fa}"
 output:
   - log:
diff --git a/modules/nf-core/sgdemux/meta.yml b/modules/nf-core/sgdemux/meta.yml
index 3dd52d75aaa..131d33aea08 100644
--- a/modules/nf-core/sgdemux/meta.yml
+++ b/modules/nf-core/sgdemux/meta.yml
@@ -21,7 +21,7 @@ input:
     - sample_sheet:
         type: file
         description: sample_sheet file (either a Singular Genomics sample sheet, or
-          a two column csv wih Sample_Barcode and Sample_ID)
+          a two column csv with Sample_Barcode and Sample_ID)
         pattern: "*.{csv}"
     - fastqs_dir:
         type: directory
diff --git a/modules/nf-core/smoove/call/meta.yml b/modules/nf-core/smoove/call/meta.yml
index 379ae6e2dae..ce6a0c86a85 100644
--- a/modules/nf-core/smoove/call/meta.yml
+++ b/modules/nf-core/smoove/call/meta.yml
@@ -1,7 +1,7 @@
 name: "smoove_call"
 description: smoove simplifies and speeds calling and genotyping SVs for short reads.
   It also improves specificity by removing many spurious alignment signals that are
-  indicative of low-level noise and often contribute to spurious calls. Developped
+  indicative of low-level noise and often contribute to spurious calls. Developed
   by Brent Pedersen.
 keywords:
   - structural variants
diff --git a/modules/nf-core/survivor/bedpetovcf/meta.yml b/modules/nf-core/survivor/bedpetovcf/meta.yml
index 8a1b4f941f1..04cd3011830 100644
--- a/modules/nf-core/survivor/bedpetovcf/meta.yml
+++ b/modules/nf-core/survivor/bedpetovcf/meta.yml
@@ -1,5 +1,5 @@
 name: "survivor_bedpetovcf"
-description: Converts a bedpe file ot a VCF file (beta version)
+description: Converts a bedpe file to a VCF file (beta version)
 keywords:
   - bedpe
   - conversion
diff --git a/modules/nf-core/survivor/stats/meta.yml b/modules/nf-core/survivor/stats/meta.yml
index cc89f0aead6..dadd990b620 100644
--- a/modules/nf-core/survivor/stats/meta.yml
+++ b/modules/nf-core/survivor/stats/meta.yml
@@ -1,5 +1,5 @@
 name: "survivor_stats"
-description: Report multipe stats over a VCF file
+description: Report multiple stats over a VCF file
 keywords:
   - survivor
   - statistics
diff --git a/modules/nf-core/tbprofiler/profile/meta.yml b/modules/nf-core/tbprofiler/profile/meta.yml
index 98989dda107..dd0e0b4a578 100644
--- a/modules/nf-core/tbprofiler/profile/meta.yml
+++ b/modules/nf-core/tbprofiler/profile/meta.yml
@@ -43,7 +43,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - results/*.csv:
           type: file
-          description: Optional CSV formated result file of resistance and strain type
+          description: Optional CSV formatted result file of resistance and strain type
           pattern: "*.csv"
   - json:
       - meta:
@@ -53,7 +53,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - results/*.json:
           type: file
-          description: JSON formated result file of resistance and strain type
+          description: JSON formatted result file of resistance and strain type
           pattern: "*.json"
   - txt:
       - meta:
@@ -73,7 +73,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - vcf/*.vcf.gz:
           type: file
-          description: VCF with variant info again refernce genomes
+          description: VCF with variant info again reference genomes
           pattern: "*.vcf"
   - versions:
       - versions.yml:
diff --git a/modules/nf-core/tcoffee/align/main.nf b/modules/nf-core/tcoffee/align/main.nf
index 09bb879deed..3cee8b33695 100644
--- a/modules/nf-core/tcoffee/align/main.nf
+++ b/modules/nf-core/tcoffee/align/main.nf
@@ -10,7 +10,7 @@ process TCOFFEE_ALIGN {
     input:
     tuple val(meta) ,  path(fasta)
     tuple val(meta2),  path(tree)
-    tuple val(meta3),  path(template), path(accessory_informations)
+    tuple val(meta3),  path(template), path(accessory_information)
     val(compress)
 
     output:
diff --git a/modules/nf-core/tcoffee/align/meta.yml b/modules/nf-core/tcoffee/align/meta.yml
index 518be2b39d5..e5cdd82cb3e 100644
--- a/modules/nf-core/tcoffee/align/meta.yml
+++ b/modules/nf-core/tcoffee/align/meta.yml
@@ -48,7 +48,7 @@ input:
         description: T_coffee template file that maps sequences to the accessory information
           files to be used.
         pattern: "*"
-    - accessory_informations:
+    - accessory_information:
         type: file
         description: Accessory files to be used in the alignment. For example, it could
           be protein structures or secondary structures.
diff --git a/modules/nf-core/tcoffee/regressive/main.nf b/modules/nf-core/tcoffee/regressive/main.nf
index baf825681b5..2c20b9aad78 100644
--- a/modules/nf-core/tcoffee/regressive/main.nf
+++ b/modules/nf-core/tcoffee/regressive/main.nf
@@ -10,7 +10,7 @@ process TCOFFEE_REGRESSIVE {
     input:
     tuple val(meta) , path(fasta)
     tuple val(meta2), path(tree)
-    tuple val(meta3), path(template), path(accessory_informations)
+    tuple val(meta3), path(template), path(accessory_information)
     val(compress)
 
     output:
diff --git a/modules/nf-core/tcoffee/regressive/meta.yml b/modules/nf-core/tcoffee/regressive/meta.yml
index 9f9c896744a..52d3719f733 100644
--- a/modules/nf-core/tcoffee/regressive/meta.yml
+++ b/modules/nf-core/tcoffee/regressive/meta.yml
@@ -48,7 +48,7 @@ input:
         description: T_coffee template file that maps sequences to the accessory information
           files to be used.
         pattern: "*"
-    - accessory_informations:
+    - accessory_information:
         type: file
         description: Accessory files to be used in the alignment. For example, it could
           be protein structures or secondary structures.
diff --git a/modules/nf-core/tsebra/meta.yml b/modules/nf-core/tsebra/meta.yml
index b7808efe05e..e825d87bfd1 100644
--- a/modules/nf-core/tsebra/meta.yml
+++ b/modules/nf-core/tsebra/meta.yml
@@ -1,6 +1,6 @@
 # yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/meta-schema.json
 name: "tsebra"
-description: Transcript Selector for BRAKER TSEBRA combines gene predictions by selecing
+description: Transcript Selector for BRAKER TSEBRA combines gene predictions by selecting
   transcripts based on their extrisic evidence support
 keywords:
   - genomics
diff --git a/modules/nf-core/universc/README.md b/modules/nf-core/universc/README.md
index 793f4f13795..c2ffccab6bc 100644
--- a/modules/nf-core/universc/README.md
+++ b/modules/nf-core/universc/README.md
@@ -27,7 +27,7 @@ To comply with licensing and respect 10X Genomics Trademarks, the 10X Genomics l
 has been removed from HTML reports, the tool has been renamed, and proprietary
 closed-source tools to build Cloupe files are disabled.
 
-It is still suffient to generate summary reports and count matrices compatible with
+It is still sufficient to generate summary reports and count matrices compatible with
 single-cell analysis tools available for 10X Genomics and Cell Ranger output format
 in Python and R packages.
 
diff --git a/modules/nf-core/vcftools/main.nf b/modules/nf-core/vcftools/main.nf
index 24e0fc3b0e8..67bca9af0c3 100644
--- a/modules/nf-core/vcftools/main.nf
+++ b/modules/nf-core/vcftools/main.nf
@@ -10,7 +10,7 @@ process VCFTOOLS {
     input:
     // Owing to the nature of vcftools we here provide solutions to working with optional bed files and optional
     // alternative variant files, for use with the 'diff' suite of tools.
-    // Other optional input files can be utilised in a similar way to below but we do not exhaustively itterate through all
+    // Other optional input files can be utilised in a similar way to below but we do not exhaustively iterate through all
     // possible options. Instead we leave that to the user.
     tuple val(meta), path(variant_file)
     path  bed
diff --git a/modules/nf-core/vcftools/meta.yml b/modules/nf-core/vcftools/meta.yml
index b4c564ecaf2..b9bae4df126 100644
--- a/modules/nf-core/vcftools/meta.yml
+++ b/modules/nf-core/vcftools/meta.yml
@@ -454,7 +454,7 @@ output:
       - "*.FORMAT":
           type: file
           description: Extracted information from the genotype fields in the VCF file
-            relating to a specfied FORMAT identifier (optional)
+            relating to a specified FORMAT identifier (optional)
           pattern: "*.FORMAT"
   - info:
       - meta:
diff --git a/modules/nf-core/velocyto/meta.yml b/modules/nf-core/velocyto/meta.yml
index 9c4a8f77486..e7d2caef027 100644
--- a/modules/nf-core/velocyto/meta.yml
+++ b/modules/nf-core/velocyto/meta.yml
@@ -19,7 +19,7 @@ description: |
   ```
   Optional mask must be passed with `ext.args` and option `--mask`
   This is why I need to stage in the work dir 2 bam files (cellsorted and original).
-  See also [velocyto turorial](https://velocyto.org/velocyto.py/tutorial/cli.html#notes-on-first-runtime-and-parallelization)
+  See also [velocyto tutorial](https://velocyto.org/velocyto.py/tutorial/cli.html#notes-on-first-runtime-and-parallelization)
 
 keywords:
   - count
diff --git a/modules/nf-core/vg/index/meta.yml b/modules/nf-core/vg/index/meta.yml
index c929349e813..35defce18fa 100644
--- a/modules/nf-core/vg/index/meta.yml
+++ b/modules/nf-core/vg/index/meta.yml
@@ -33,7 +33,7 @@ output:
             e.g. [ id:'test', single_end:false ]
       - "*.xg":
           type: file
-          description: File containing a succint, queryable version of the input graph(s)
+          description: File containing a succinct, queryable version of the input graph(s)
             or read for GCSA or distance indexing
           pattern: "*.xg"
   - vg_index:
diff --git a/modules/nf-core/wisecondorx/newref/tests/main.nf.test b/modules/nf-core/wisecondorx/newref/tests/main.nf.test
index 3645d7734ef..f2f0893758e 100644
--- a/modules/nf-core/wisecondorx/newref/tests/main.nf.test
+++ b/modules/nf-core/wisecondorx/newref/tests/main.nf.test
@@ -12,7 +12,7 @@ nextflow_process {
 
     test("homo_sapiens - [npz]") {
 
-        // Stub run because this process needs at least 30 samples to succesfully run
+        // Stub run because this process needs at least 30 samples to successfully run
         options "-stub"
 
         setup {
diff --git a/subworkflows/nf-core/bam_cnv_wisecondorx/meta.yml b/subworkflows/nf-core/bam_cnv_wisecondorx/meta.yml
index 30a473492c4..342b3345f3b 100644
--- a/subworkflows/nf-core/bam_cnv_wisecondorx/meta.yml
+++ b/subworkflows/nf-core/bam_cnv_wisecondorx/meta.yml
@@ -30,7 +30,7 @@ input:
         Structure: [ val(meta4), path(reference) ]
   - ch_blacklist:
       description: |
-        An optional channel containing a BED file with regions to mask from the analyis
+        An optional channel containing a BED file with regions to mask from the analysis
         Structure: [ val(meta5), path(blacklist) ]
 output:
   - aberrations_bed:
diff --git a/subworkflows/nf-core/bam_tumor_only_somatic_variant_calling_gatk/main.nf b/subworkflows/nf-core/bam_tumor_only_somatic_variant_calling_gatk/main.nf
index f6fb0acc7b6..ad14056d449 100644
--- a/subworkflows/nf-core/bam_tumor_only_somatic_variant_calling_gatk/main.nf
+++ b/subworkflows/nf-core/bam_tumor_only_somatic_variant_calling_gatk/main.nf
@@ -86,7 +86,7 @@ workflow BAM_TUMOR_ONLY_SOMATIC_VARIANT_CALLING_GATK {
         .combine(ch_stats, by: 0)
         .combine(ch_segment, by: 0)
         .combine(ch_contamination, by: 0)
-    // Adding [] as a placeholder for the optional input file artifact priors, which is only used for tumor-normal samples and therefor isn't needed in this workflow.
+    // Adding [] as a placeholder for the optional input file artifact priors, which is only used for tumor-normal samples and therefore isn't needed in this workflow.
     // and [] as a placeholder for entering a contamination estimate value, which is not needed as this workflow uses the contamination table instead.
         .map{ meta, vcf, tbi, stats, segment, contamination -> [meta, vcf, tbi, stats, [], segment, contamination, [] ] }
 
diff --git a/subworkflows/nf-core/bam_variant_demix_boot_freyja/main.nf b/subworkflows/nf-core/bam_variant_demix_boot_freyja/main.nf
index 4f9f0674349..627195db368 100644
--- a/subworkflows/nf-core/bam_variant_demix_boot_freyja/main.nf
+++ b/subworkflows/nf-core/bam_variant_demix_boot_freyja/main.nf
@@ -53,7 +53,7 @@ workflow BAM_VARIANT_DEMIX_BOOT_FREYJA {
 
 
     //
-    // Perform bootstrapping to get more accurate estimates of abundancies
+    // Perform bootstrapping to get more accurate estimates of abundances
     //
     ch_lineages   = Channel.empty()
     ch_summarized = Channel.empty()
diff --git a/subworkflows/nf-core/fastq_align_bwaaln/main.nf b/subworkflows/nf-core/fastq_align_bwaaln/main.nf
index ccf63d5cf95..36d4fc5eb66 100644
--- a/subworkflows/nf-core/fastq_align_bwaaln/main.nf
+++ b/subworkflows/nf-core/fastq_align_bwaaln/main.nf
@@ -102,7 +102,7 @@ workflow FASTQ_ALIGN_BWAALN {
 
     emit:
     // Note: output channels will contain meta with additional 'id_index' meta
-    // value to allow association of BAM file with the meta.id of input indicies
+    // value to allow association of BAM file with the meta.id of input indices
     bam      = ch_bam_for_emit     // channel: [ val(meta), path(bam) ]
     bai      = ch_bai_for_emit     // channel: [ val(meta), path(bai) ]
     csi      = ch_csi_for_emit     // channel: [ val(meta), path(csi) ]
diff --git a/subworkflows/nf-core/fastq_align_bwaaln/nextflow.config b/subworkflows/nf-core/fastq_align_bwaaln/nextflow.config
index 2ff16551640..f602293907a 100644
--- a/subworkflows/nf-core/fastq_align_bwaaln/nextflow.config
+++ b/subworkflows/nf-core/fastq_align_bwaaln/nextflow.config
@@ -1,5 +1,5 @@
 // IMPORTANT: Add this configuration to your modules.config
-// These settings are to ensure you include the reference information within the output file names, to prevent overwritting!
+// These settings are to ensure you include the reference information within the output file names, to prevent overwriting!
 // `meta.id_index` is created and used within the workflow. You must reuse this meta field if you wish to customise the file naming scheme.
 
 process {
diff --git a/subworkflows/nf-core/fastq_align_hisat2/meta.yml b/subworkflows/nf-core/fastq_align_hisat2/meta.yml
index 6f00d4daa27..032144af537 100644
--- a/subworkflows/nf-core/fastq_align_hisat2/meta.yml
+++ b/subworkflows/nf-core/fastq_align_hisat2/meta.yml
@@ -51,7 +51,7 @@ output:
       pattern: "*.{bam}"
   - summary:
       type: file
-      description: Aligment log
+      description: Alignment log
       pattern: "*.log"
   - fastq:
       type: file
diff --git a/subworkflows/nf-core/fastq_create_umi_consensus_fgbio/meta.yml b/subworkflows/nf-core/fastq_create_umi_consensus_fgbio/meta.yml
index ae22aece780..82807204fb7 100644
--- a/subworkflows/nf-core/fastq_create_umi_consensus_fgbio/meta.yml
+++ b/subworkflows/nf-core/fastq_create_umi_consensus_fgbio/meta.yml
@@ -52,7 +52,7 @@ input:
   - groupreadsbyumi_strategy:
       type: string
       description: ""
-      Reguired argument: defines the UMI assignment strategy.
+      Required argument: defines the UMI assignment strategy.
       enum:
         - Identity
         - Edit
diff --git a/subworkflows/nf-core/mmseqs_contig_taxonomy/meta.yml b/subworkflows/nf-core/mmseqs_contig_taxonomy/meta.yml
index edf4874b3d7..15126b6e619 100644
--- a/subworkflows/nf-core/mmseqs_contig_taxonomy/meta.yml
+++ b/subworkflows/nf-core/mmseqs_contig_taxonomy/meta.yml
@@ -34,7 +34,7 @@ output:
   - taxonomy:
       type: file
       description: |
-        Channel containing the tab seperated file with all assigned taxonomy.
+        Channel containing the tab separated file with all assigned taxonomy.
         Structure: [ val(meta), path(tsv) ]
       pattern: "*.tsv"
   - db_mmseqs:
diff --git a/subworkflows/nf-core/utils_nfvalidation_plugin/main.nf b/subworkflows/nf-core/utils_nfvalidation_plugin/main.nf
index 2398c620c5f..73c382fd7db 100644
--- a/subworkflows/nf-core/utils_nfvalidation_plugin/main.nf
+++ b/subworkflows/nf-core/utils_nfvalidation_plugin/main.nf
@@ -21,7 +21,7 @@ include { validateParameters } from 'plugin/nf-validation'
 workflow UTILS_NFVALIDATION_PLUGIN {
     take:
     print_help       // boolean: print help
-    workflow_command //  string: default commmand used to run pipeline
+    workflow_command //  string: default command used to run pipeline
     pre_help_text    //  string: string to be printed before help text and summary log
     post_help_text   //  string: string to be printed after help text and summary log
     validate_params  // boolean: validate parameters
diff --git a/subworkflows/nf-core/vcf_annotate_ensemblvep/main.nf b/subworkflows/nf-core/vcf_annotate_ensemblvep/main.nf
index 291eddc11b0..d9c9e834fd9 100644
--- a/subworkflows/nf-core/vcf_annotate_ensemblvep/main.nf
+++ b/subworkflows/nf-core/vcf_annotate_ensemblvep/main.nf
@@ -7,7 +7,7 @@ include { TABIX_TABIX    } from '../../../modules/nf-core/tabix/tabix/main'
 
 workflow VCF_ANNOTATE_ENSEMBLVEP {
     take:
-    ch_vcf                      // channel: [ val(meta), path(vcf), [path(custom_file1), path(custom_file2)... (optionnal)]]
+    ch_vcf                      // channel: [ val(meta), path(vcf), [path(custom_file1), path(custom_file2)... (optional)]]
     ch_fasta                    // channel: [ val(meta2), path(fasta) ] (optional)
     val_genome                  //   value: genome to use
     val_species                 //   value: species to use
diff --git a/subworkflows/nf-core/vcf_annotate_ensemblvep/meta.yml b/subworkflows/nf-core/vcf_annotate_ensemblvep/meta.yml
index 15d42da23fe..12677c684f7 100644
--- a/subworkflows/nf-core/vcf_annotate_ensemblvep/meta.yml
+++ b/subworkflows/nf-core/vcf_annotate_ensemblvep/meta.yml
@@ -12,7 +12,7 @@ input:
   - ch_vcf:
       description: |
         vcf file to annotate
-        Structure: [ val(meta), path(vcf), [path(custom_file1), path(custom_file2)... (optionnal)] ]
+        Structure: [ val(meta), path(vcf), [path(custom_file1), path(custom_file2)... (optional)] ]
   - ch_fasta:
       description: |
         Reference genome fasta file (optional)
diff --git a/tests/modules/nf-core/msisensor/msi/main.nf b/tests/modules/nf-core/msisensor/msi/main.nf
index 5d052c5b9c5..76905017bc9 100644
--- a/tests/modules/nf-core/msisensor/msi/main.nf
+++ b/tests/modules/nf-core/msisensor/msi/main.nf
@@ -15,7 +15,7 @@ workflow test_msisensor_msi {
     // IMPERFECT TEST:
     // USING SARS-COV2 DATA AS NORMAL:TUMOR PAIR THIS WILL SUFFICE TO
     // TEST MODULE EXECUTION, BUT NOT FUNCTIONALITY.
-    // FUNCTIONALITY HAS BEEN TESTED MANUALY USING AUTHOR-PROVIDED TEST
+    // FUNCTIONALITY HAS BEEN TESTED MANUALLY USING AUTHOR-PROVIDED TEST
     // DATA (https://github.com/ding-lab/msisensor/tree/master/test)
     def input      = []
 
diff --git a/tests/modules/nf-core/parabricks/mutectcaller/main.nf b/tests/modules/nf-core/parabricks/mutectcaller/main.nf
new file mode 100644
index 00000000000..a240ce74ecf
--- /dev/null
+++ b/tests/modules/nf-core/parabricks/mutectcaller/main.nf
@@ -0,0 +1,113 @@
+#!/usr/bin/env nextflow
+
+nextflow.enable.dsl = 2
+
+include { PARABRICKS_MUTECTCALLER } from '../../../../../modules/nf-core/parabricks/mutectcaller/main.nf'
+include { PARABRICKS_MUTECTCALLER as PARABRICKS_MUTECTCALLER_TN } from '../../../../../modules/nf-core/parabricks/mutectcaller/main.nf'
+include { PARABRICKS_MUTECTCALLER as PARABRICKS_MUTECTCALLER_TN_INTERVALS } from '../../../../../modules/nf-core/parabricks/mutectcaller/main.nf'
+include { PARABRICKS_MUTECTCALLER as PARABRICKS_MUTECTCALLER_PON } from '../../../../../modules/nf-core/parabricks/mutectcaller/main.nf'
+
+workflow test_parabricks_mutectcaller {
+    
+    input = [
+        [ id:'test',  tumor_id:'tumour' ],
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        [], // index only needed if using intervals or tumor-normal calling
+        [],
+        [],
+        []
+    ]
+    fasta = [
+        [ id: 'homo_sapiens' ],
+        file(params.test_data['homo_sapiens']['genome']['genome_21_fasta'], checkIfExists: true)
+        ]
+    panel_of_normals = []
+    panel_of_normals_index = []
+
+    PARABRICKS_MUTECTCALLER ( input, fasta, panel_of_normals, panel_of_normals_index )
+}
+
+// tumor-normal calling not passing because of issue with readgroups in the test files
+// [PB Error][src/readers.cpp:1314] ID simulation01 maps to tm_simulation01, but PU is nm_simulation01 (different platform), exiting.
+workflow test_parabricks_mutectcaller_tn {
+    input = [
+        [ id:'test',  tumor_id:'tumour', normal_id:'normal' ],
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        []      
+    ]
+    fasta = [
+         [ id: 'homo_sapiens' ],
+         file(params.test_data['homo_sapiens']['genome']['genome_21_fasta'], checkIfExists: true)
+         ]
+    panel_of_normals = []
+    panel_of_normals_index = []
+
+    PARABRICKS_MUTECTCALLER_TN ( input, fasta, panel_of_normals, panel_of_normals_index )
+}
+
+workflow test_parabricks_mutectcaller_intervals {
+    input = [
+        [ id:'test',  tumor_id:'tumour' ],
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        [],
+        [],
+        file(params.test_data['homo_sapiens']['genome']['genome_21_multi_interval_bed'], checkIfExists: true)      
+    ]
+
+    fasta = [
+        [ id: 'homo_sapiens' ],
+        file(params.test_data['homo_sapiens']['genome']['genome_21_fasta'], checkIfExists: true)
+        ]
+
+    panel_of_normals = []
+    panel_of_normals_index = []
+
+    PARABRICKS_MUTECTCALLER ( input, fasta, panel_of_normals, panel_of_normals_index )
+}
+
+workflow test_parabricks_mutectcaller_tn_intervals {
+    input = [
+        [ id:'test',  tumor_id:'tumour', normal_id:'normal'],
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['genome']['genome_21_multi_interval_bed'], checkIfExists: true)      
+    ]
+    
+    fasta = [
+        [ id: 'homo_sapiens' ],
+        file(params.test_data['homo_sapiens']['genome']['genome_21_fasta'], checkIfExists: true)
+        ]
+    panel_of_normals = []
+    panel_of_normals_index = []
+
+    PARABRICKS_MUTECTCALLER_TN_INTERVALS ( input, fasta, panel_of_normals, panel_of_normals_index )
+}
+
+// PON test not passing because the tool expects all chromosomes in the PON file to 
+// be present in the reference genome. 
+workflow test_parabricks_mutectcaller_pon {
+    input = [
+        [ id:'test',  tumor_id:'tumour' ],
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
+        file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
+        [],
+        [],
+        file(params.test_data['homo_sapiens']['genome']['genome_21_multi_interval_bed'], checkIfExists: true)      
+    ]
+
+    fasta = [
+           [ id: 'homo_sapiens' ],
+           file(params.test_data['homo_sapiens']['genome']['genome_21_fasta'], checkIfExists: true)
+           ]
+
+    panel_of_normals = file(params.test_data['homo_sapiens']['genome']['mills_and_1000g_indels_21_vcf_gz'], checkIfExists: true)
+    panel_of_normals_index = file(params.test_data['homo_sapiens']['genome']['mills_and_1000g_indels_21_vcf_gz_tbi'], checkIfExists: true)
+
+    PARABRICKS_MUTECTCALLER_PON ( input, fasta, panel_of_normals, panel_of_normals_index )
+}
diff --git a/tests/modules/nf-core/sentieon/license_message.py b/tests/modules/nf-core/sentieon/license_message.py
index c4a34f92407..17ca5270575 100644
--- a/tests/modules/nf-core/sentieon/license_message.py
+++ b/tests/modules/nf-core/sentieon/license_message.py
@@ -99,7 +99,7 @@ def parse_args(argv=None):
     encrypt_parser.add_argument("--message", required=True, help="Message to encrypt")
     encrypt_parser.set_defaults(func=handle_encrypt_message)
 
-    decrypt_parser = subparsers.add_parser("decrypt", help="Decyrpt a message")
+    decrypt_parser = subparsers.add_parser("decrypt", help="Decrypt a message")
     decrypt_parser.add_argument("--key", required=True, help="The encryption key")
     decrypt_parser.add_argument("--message", required=True, help="Message to decrypt")
     decrypt_parser.add_argument(