Analysis pipeline for the functional annotation and translation of somatic SNVs/InDels and copy number abberations for precision cancer medicine using PCGR

Repository to host tool-specific module files for the Nextflow DSL2 community!

Code and files for the main nf-core website.

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Config files used to define parameters specific to compute environments at different Institutions

Nextflow pipeline to transform (g)VCF files to matrices for statistical analysis.

Test data to be used for automated testing with the nf-core pipelines

Converts bam or cram files to fastq format and does quality control.

This repository contains the homepage of the KohlbacherLab.

Conda recipes for the bioconda channel.

A nextflow variant benchmarking pipeline - premature

A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets

Python package with helper tools for the nf-core community.

A python library and command-line client for file storage on OSF

ABlog for blogging with Sphinx

Example of building Sphinx docs to GitHub Pages

CarveMe: genome-scale metabolic model reconstruction

Genome-scale metabolic model of Neocallimastix lanati