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rna-seq-star-deseq2
RNA-seq workflow using STAR and DESeq2dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflowdocs
Documentation of the Snakemake-Workflows projectsingle-cell-rna-seq
A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.snakemake-workflow-template
A template for standard compliant snakemake-workflowsdna-seq-varlociraptor
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.rna-seq-kallisto-sleuth
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.cookiecutter-snakemake-workflow
A cookiecutter template for Snakemake workflowschipseq
ChIP-seq peak-calling, QC and differential analysis pipeline (Snakemake port of the nextflow pipeline at https://nf-co.re/chipseq).ngs-test-data
A workflow for creating small NGS test data sets, useful for continuous integration.dna-seq-neoantigen-prediction
Snakemake workflow for neoantigen predictiondna-seq-benchmark
A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasetsdna-seq-mtb
A flavor of https://github.com/snakemake-workflows/dna-seq-varlociraptor preconfigured for molecular tumor boardscyrcular-calling
A Snakemake workflow for ecDNA detection in Nanopore or Illumina sequencing reads derived from DNA samples enriched for circular DNA.species-quantification
cite-seq-alevin-fry-seurat
Snakemake workflow for CITE-seq analaysis with alevin-fry and seurattranscriptome-differential-expression
long read differential expression analysisstructure-based-screening
Workflow for screening massive amounts of small molecules (ligands) against a target (PDB-File)Love Open Source and this site? Check out how you can help us