Nextflow Registry | Nextflow Pipelines

Nextflow Pipelines

Nextflow pipelines hosted in Git repositories. Each published release records the Git revision it runs and the launch configuration it ships with.

8 pipeline(s) matching "rnaseq".

Pipeline	Keywords	Description
nf-core/dartseq 0.0.0-da3db96	dartseq rna-editing rnaseq	Pipeline for m6A detection in RNAseq data
nf-core/dualrnaseq 1.0.0	dualrna-seq host-pathogen quantification readmapping +1	Analysis of Dual RNA-seq data - an experimental method for interrogating host-pathogen interactions through simultaneous RNA-seq.
nf-core/rnaseq 3.27.0	rna rna-seq	RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
nf-core/rnavar 1.3.0	gatk4 rna rnaseq variant-calling +1	gatk4 RNA variant calling pipeline
nf-core/scflow 0.0.0-c2c9728	rnaseq single-cell single-nuclei single-nuclei-rna-sequencing	Please consider using/contributing to https://github.com/nf-core/scdownstream
nf-core/scnanoseq 1.3.0	10xgenomics long-read-sequencing nanopore rna-seq +3	Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
nf-core/scrnaseq 4.2.0	10x-genomics 10xgenomics alevin bustools +5	Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
nf-core/smrnaseq 2.4.1	small-rna smrna-seq	A small-RNA sequencing analysis pipeline