Snakemake-Workflows
Pinned Loading
Repositories
- dna-seq-mtb Public
A flavor of https://github.com/snakemake-workflows/dna-seq-varlociraptor preconfigured for molecular tumor boards
- calculate-codon-usage Public
Standardised Snakemake workflow for calculating codon usage statics of coding sequences, including the RSCU (relative synonymous codon usage).
- 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.
- single-cell-counts-preprocessing Public
A standardised Snakemake workflow for preprocessing of single-cell RNAseq count data following single-cell best practices.
- rna-seq-kallisto-sleuth Public
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
- 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-xengsort Public
A standardized Snakemake workflow to separate host and graft sequencing reads from RNAseq data using xengsort.
- rna-longseq-de-isoform Public
long read differential expression analysis and splice variant analysis
- cellranger-multi Public
A Snakemake workflow for preprocessing single cell RNAseq (scRNA-seq) data with `cellranger multi` (Cell Ranger licensing requires a manual download of the software).
Top languages
Loading…