Top workflows by stars
snakemake-workflows
RNA-seq workflow using STAR and DESeq2
Updated: 2024-09-13 Release: v2.1.2formatting: passedlinting: passed
snakemake-workflows
This Snakemake pipeline implements the GATK best-practices workflow
Updated: 2023-06-29 Release: v2.1.1formatting: failedlinting: passed
franciscozorrilla
:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and pred…
Updated: 2024-09-19 Release: v1.0.5formatting: failedlinting: failed
cbg-ethz
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
Updated: 2025-05-08 Release: v3.0.0.pre1formatting: passedlinting: failed
moiexpositoalonsolab
A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads,…
Updated: 2025-05-11 Release: v0.15.0formatting: passedlinting: failed
snakemake-workflows
A template for standard compliant snakemake-workflows
Updated: 2025-05-17 Release: Noneformatting: passedlinting: passed
mrvollger
Make colorful identity heatmaps of genomic sequence
Updated: 2024-07-16 Release: v0.6formatting: passedlinting: passed
snakemake-workflows
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/nor…
Updated: 2025-05-23 Release: v5.16.2formatting: failedlinting: failed
GooglingTheCancerGenome
Snakemake-based workflow for detecting structural variants in genomic data
Updated: 2025-02-14 Release: v1.2.2formatting: failedlinting: failed
snakemake-workflows
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
Updated: 2025-05-02 Release: v2.11.1formatting: failedlinting: passed
epigen
Ultimate ATAC-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Mo…
Updated: 2024-12-01 Release: v2.0.0formatting: failedlinting: failed
zavolanlab
The Zavolab Automated RNA-seq Pipeline
Updated: 2025-04-22 Release: v1.0.0formatting: passedlinting: passed
epigen
A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment …
Updated: 2024-12-19 Release: v2.0.0formatting: failedlinting: failed
epigen
A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) a…
Updated: 2025-05-09 Release: v2.1.0formatting: failedlinting: failed
sneuensc
mapping pipeline for ancient DNA
Updated: 2024-10-28 Release: v0.3.0formatting: failedlinting: failed