Single-cell Transcriptome and Regulome Analysis Pipeline

Documentation of the Snakemake-Workflows project

A cookiecutter template for Snakemake workflows

Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer

StaG Metagenomic Workflow Collaboration

A workflow for creating small NGS test data sets, useful for continuous integration.

MetScale: snakemake workflows to scale metagenome analyses

:snake: Snakemake wrappers for bioinformatics.

Pipeline to analyse ChIP-Rx data, i.e ChIP-Seq with reference exogenous genome spike-in normalization

A workflow to analyse sequence mutations in CRISPR-CAS9 targeted amplicon sequencing data

The snakemake workflow for whole-exome sequencing analysis and generating vcf files

Bioinformatics pipeline for nanopore sequencing data

Pipeline for lncRNA, Circular RNA, and novel mRNA identification.

Pipeline for analysis of Dropseq single cell data

Imputation workflow for low coverage whole genome sequencing data

Snakemake workflow to run transdecoder + trinotate

Scaling studies on high-performance clusters using Snakemake workflows

RBP module for bindz, a bioinformatics tool to detect regulators' binding sites on RNA sequences.

Snakemake pipeline for Popoolation and Popoolation2

Melange - Snakemake workflow for genome annotation

Collective Snakemake workflows for easy and reproducible NGS data analysis.

Snakemake pipeline for lncRNA discovery and quantification

Repository that hosts the course materials for the 2017 edition of Programming Practices for Research in Economics at the University of Zurich

A Snakemake workflow assembling bacterial genomes according to the standard operating procedure in the Clavel Lab

Make energy model workflows easy as 🥧!

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:snake::wrench: Snakemake wrappers for GATK.

Multisample DNAseq variant calling pipeline for use in diagnostics

quantify-virome: identify and quantify viruses from metagenomic shotgun sequences

snakemake workflow for random forest based feature selection on chromHMM data