nf-core's repositories
taxprofiler
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
test-datasets
Test data to be used for automated testing with the nf-core pipelines
differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
demultiplex
Demultiplexing pipeline for sequencing data
epitopeprediction
A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
crisprseq
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`).
readsimulator
A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
oncoanalyser
A comprehensive cancer DNA/RNA analysis and reporting pipeline
vscode-extensionpack
A VSCode extension pack for nf-core developers.
setup-nextflow
A GitHub action to install Nextflow
phageannotator
Pipeline for identifying, annotation, and quantifying phage sequences in (meta)-genomic sequences.
tfactivity
Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.
createpanelrefs
Generate Panel of Normals, models or other similar references from lots of samples
createtaxdb
Parallelised and automated construction of metagenomic classifier databases of different tools