nf-core / raredisease
Call and score variants from WGS/WES of rare disease patients.
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Call and score variants from WGS/WES of rare disease patients.
Generate Panel of Normals, models or other similar references from lots of samples
Amplicon sequencing analysis workflow using DADA2 and QIIME2
A pipeline to investigate horizontal gene transfer from NGS data
Pipeline for HiCAR data, a robust and sensitive multi-omic co-assay for simultaneous measurement of transcriptome, chromatin accessibility and cis-regulatory chromatin contacts.
gatk4 RNA variant calling pipeline
Config files used to define parameters specific to compute environments at different Institutions
Pipeline to generate variant catalogues, a list of variants and their frequencies in a population, from whole genome sequences.
Coprolite host Identification pipeline
De novo assembly pipeline for 10X linked-reads using Supernova
A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
Single-stranded DNA Sequencing (SSDS) nf-core pipeline
Pipeline for identifying, annotation, and quantifying phage sequences in (meta)-genomic sequences.
RNA-seq analysis pipeline for detection gene-fusions
k-mer similarity analysis pipeline
A single-cell RNAseq pipeline for 10X genomics data
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Demultiplexing pipeline for sequencing data
Variant-calling pipeline for Restriction site-associated DNA sequencing (RADseq).
B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
Automated quantitative analysis of DIA proteomics mass spectrometry measurements.
Repository to host tool-specific module files for the Nextflow DSL2 community!
Proteomics label-free quantification (LFQ) analysis pipeline
DEPRECIATED! Please use nf-core/tools instead