A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

An adaptable Snakemake workflow which uses GATKs best practice recommendations to perform germline mutation calling starting with BAM files

A Snakemake workflow for variant calling using GATK4 best practices

Snakemake based workflow for calling Variants on RNA-Seq data in a joint calling mode

Snakemake pipeline for variant calling using GATK

This a snakemake pipeline to detect Somatic mutations (GATK4 and Mutect2)

Map and post-process your bams for SNP calling

Small GATK alignment and variant calling pipeline using python

Pipeline for calling and analyzing variants from RNA-Seq data

Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples

The snakyVC pipeline is designed for efficiently and parallelly executing variant calling on next-generation sequencing (NGS) whole-genome datasets.

Repository for scripts used to estimate guppy (Poecilia reticulata) mutation rate.