Snakemake-Workflows
Pinned
Repositories
- dna-seq-varlociraptor Public
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.
- dna-seq-benchmark Public
A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets
- rna-seq-kallisto-sleuth Public
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
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- dna-seq-mtb Public
A flavor of https://github.com/snakemake-workflows/dna-seq-varlociraptor preconfigured for molecular tumor boards
- dna-seq-short-read-circle-map Public
A snakemake workflow for calling extrachromosomal circular DNA in Illumina short-read sequencing data with Circle-Map
- cyrcular-calling Public
A Snakemake workflow for ecDNA detection in Nanopore or Illumina sequencing reads derived from DNA samples enriched for circular DNA.
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