nf-core
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- Call and score variants from WGS/WES of rare disease patients.
phaseimpute
PublicA bioinformatics pipeline to phase and impute genetic data- Pipeline for testing drug response prediction models in a statistically and biologically sound way.
variantbenchmarking
Public- Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
- Process methylation data from Illumina arrays. Pre-processing, quality checks, confounder check and DMPs (differentially methylated positions) and DMRs (differentially methylated regions). Optionally estimates cell type composition and adjusts data for it.
ops
Publicmolkart
PublicA pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)configs
PublicConfig files used to define parameters specific to compute environments at different Institutions- nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.
- A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as the discovery of important genes from knock-out or activation CRISPR-Cas9 screens using CRISPR pooled DNA (`screening`).
- A fully reproducible and state-of-the-art ancient DNA analysis pipeline
proteinfold
PublicProtein 3D structure prediction pipeline- Compare the quality of multiple genomes, along with their annotations.
modules
Publicfetchngs
Publicmhcquant
Publictestpipeline
Public