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.

7 pipeline(s) matching "transcriptomics".

Pipeline	Keywords	Description
nf-core/metatdenovo 2.0.0	eukaryotes metagenomics metatranscriptomics prokaryotes +1	Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
nf-core/molkart 1.2.0	fish image-processing imaging molecularcartography +4	A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
nf-core/slamseq 1.0.0	differential-expression quantseq slamseq transcriptomics	SLAMSeq processing and analysis pipeline
nf-core/sopa 1.0.1	segmentation spatial-omics spatial-proteomics spatial-transcriptomics +1	Nextflow version of Sopa - spatial omics pipeline and analysis
nf-core/spatialaxe 1.0.1	10x-genomics atera image-processing spatial +4	A bioinformatics best-practice processing and quality control pipeline for Xenium and Artera data
nf-core/spatialvi 0.0.0-17d6cb0	10x-genomics 10xgenomics image-processing microscopy +7	Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
nf-core/tfactivity 0.0.0-5ed1431	open-chromatin-regions transcription-factors transcriptomics	Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.