GitLab

An automated workflow for generating metagenomic assemblies with a focus on reconstructing plasmids.

Practica files for the workshop

Repository containing a Snakemake ChIPseq pipeline for SE and PE datasets

Mirror of https://github.com/LOVDnl/LOVD3.git

This is the user guide for the Shark CentOS-8 Slurm-20.02 cluster. This will give the user a short introduction to the cluster and how to use it.

Engraftment calculations based on One Codex species-level taxonomic classifications of shotgun metagenomic read sets of the FECBUD trial - a collaboration between the Netherlands Donor Feces Bank and Vedanta Biosciences.

Website and materials for our Git courses

RNA-seq pipeline for AML diagnostics. Illustration from Anatomy & Physiology, licenced under the Creative Commons Attribution 3.0 Unported

A Snakemake workflow to automatically handle metagenomics preprocessing (i.e. host removal and low-quality trimming).

Mirror of https://github.com/mutalyzer/backtranslate.git

A collection of reusable WDL tasks. Category:Other

Analysis scripts used to analyse the procarcinogenic pks gene island in metagenomes of multiple recurrent Clostridioides difficile infected patients and their corresponding healthy donors from the Netherlands Donor Feces Bank.

A collection of semi-reusable scripts, which are not part of any official toolchain

A repository for the Gorter meetings summer editions to address figures and plotting!

Snakemake-based WES/IDP pipeline for LDGA.