nf-core
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153 repositories
- Stochastic Testing and Input Manipulation for Unbiased Learning Systems
website
Public- Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
- Amplicon sequencing analysis workflow using DADA2 and QIIME2
- Protein 3D structure prediction pipeline
- Generation and update of protein families
sammyseq
PublicPipeline for Sequential Analysis of MacroMolecules accessibilitY sequencing (SAMMY-seq) data, to analyze chromatin state.- 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`).
oncoanalyser
Public- Demultiplexing pipeline for sequencing data
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
mhcquant
Publiceager
PublicA fully reproducible and state-of-the-art ancient DNA analysis pipelineraredisease
PublicCall and score variants from WGS/WES of rare disease patients.references
Publicnf-core/references is a bioinformatics pipeline that build references, for multiple use cases- nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.