Nextflow Registry | Nextflow Pipelines

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Nextflow Pipelines

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

11 pipeline(s) matching "assembly".

Pipeline	Keywords	Description
nf-core/bacass 2.6.1	assembly bacterial-genomes denovo denovo-assembly +4	Simple bacterial assembly and annotation pipeline
nf-core/denovohybrid 0.0.0-9299621	assembly denovo denovo-assembly genome-assembly +4	UNDER CONSTRUCTION: Hybrid genome assembly pipeline using a combination of long and short sequencing reads
nf-core/denovotranscript 1.2.1	denovo-assembly rna-seq transcriptome	A pipeline for de novo transcriptome assembly of paired-end short reads from bulk RNA-seq
nf-core/funcscan 4.0.0	amp amr antibiotic-resistance antimicrobial-peptides +11	(Meta-)genome screening for functional and natural product gene sequences
nf-core/genomeannotator 0.0.0-1af305a	annotation assembly draft-genome gene-annotation +2	Pipeline for the identification of (coding) gene structures in draft genomes.
nf-core/genomeassembler 2.0.0	genome-assembly	Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads
nf-core/genomeqc 1.0.1	genome-assembly-evaluation genomics phylogenetic-trees quality-control	Compare the quality of multiple genomes, along with their annotations.
nf-core/mag 5.5.0	annotation assembly binning long-read-sequencing +4	Assembly and binning of metagenomes
nf-core/neutronstar 1.0.0	10x-genomics 10xgenomics denovo-assembly genome-assembly +2	De novo assembly pipeline for 10X linked-reads using Supernova
nf-core/vipr 0.0.0-6eef3b3	genome-assembly metagenomics variant-calling viral +5	Assembly and intrahost / low-frequency variant calling for viral samples
nf-core/viralrecon 3.0.0	amplicon artic assembly covid-19 +11	Assembly and intrahost/low-frequency variant calling for viral samples

Nextflow Registry v0.28.0_c73a300 - 12 Oct 2026 09:32:30 (UTC)