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scnanoseq
PublicSingle-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomicsrnaseq
Publicrnavar
Publicbamtofastq
PublicConverts bam or cram files to fastq format and does quality control.sarek
PublicAnalysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencingsmrnaseq
Publicspatialvi
PublicPipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.funcscan
Publictest-datasets
Publicdemo
Publicriboseq
Publicrnasplice
Publicviralrecon
PublicAssembly and intrahost/low-frequency variant calling for viral samplesradseq
Publicphyloplace
Publicnf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.pangenome
Publicpathogensurveillance
Publicrnafusion
Publictroughgraph
Publicpixelator
PublicPipeline to generate Molecular Pixelation data with Pixelator (Pixelgen Technologies AB)oncoanalyser
Publictaxprofiler
PublicHighly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic datararedisease
PublicCall and score variants from WGS/WES of rare disease patients.