update doc

assets/multiqc_config.yml

@@ -3,9 +3,9 @@ custom_logo_url: https://github.com/nf-core/mhcquant
 custom_logo_title: "nf-core/mhcquant"
 
 report_comment: >
-  This report has been generated by the <a href="https://github.com/nf-core/mhcquant/tree/dev" target="_blank">nf-core/mhcquant</a>
+  This report has been generated by the <a href="https://github.com/nf-core/mhcquant/releases/tag/2.6.0" target="_blank">nf-core/mhcquant</a>
   analysis pipeline. For information about how to interpret these results, please see the
-  <a href="https://nf-co.re/mhcquant/dev/docs/output" target="_blank">documentation</a>.
+  <a href="https://nf-co.re/mhcquant/2.6.0/docs/output" target="_blank">documentation</a>.
 report_section_order:
   "nf-core-mhcquant-methods-description":
     order: -1000

docs/output.md

@@ -26,7 +26,7 @@ By default (only identification) the `best_search_engine_score[1]` holds the per
 The TSV output file is an alternative output of [OpenMS](https://www.openms.de/) comprising similar information to the mzTab output. The TSV output of identification runs is a simple tab-delimited file holding information about FDR-filtered peptides and currently all values produced by `MS²Rescore`. The TSV file in quantification mode (by using `--quantify`) is more complex and described in more detail below
 
 <details markdown="1">
-<summary>TSV Quant</summary
+<summary>TSV Quant</summary>
 
 MAP contains information about the different mzML files that were provided initially
 

docs/usage.md

@@ -77,9 +77,9 @@ nextflow run nf-core/mhcquant \
   --input 'samplesheet.tsv' \
   --outdir <OUTDIR> \
   --fasta 'SWISSPROT_2020.fasta' \
-  <search parameters> \
+  <SEARCH PARAMS> \
   --peptide_min_length 8 \
---peptide_max_length 14 \
+  --peptide_max_length 14 \
   --ms2pip_model 'Immuno-HCD' \
   -profile docker
 ```