Nextflow Registry | nf-core/quast@0.0.0-0c7146d

nf-core/quast @ 0.0.0-0c7146d

Quality Assessment Tool for Genome Assemblies

quast assembly quality contig scaffold

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @drpatelh @kevinmenden

Maintainers: @drpatelh @kevinmenden

Quality Assessment Tool for Genome Assemblies

Add the following snippet to your workflow script to include this module.

include { QUAST } from 'nf-core/quast'

MIT License

Process

`Name`	`QUAST`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`consensus` file	Fasta file containing the assembly of interest

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	The genome assembly to be evaluated. Has to contain at least a non-empty string dummy value.

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`gff` file	The genome GFF file. Has to contain at least a non-empty string dummy value.

Output 6 channels

#1 tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.tsv` file	TSV file `${prefix}.tsv`

#2 results tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}` directory	Directory containing the results of the QUAST analysis

#3 unaligned tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}_unaligned.tsv` file	Report containing unaligned contigs, only when a reference fasta is provided `${prefix}_unaligned.tsv`

#4 misassemblies tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}_misassemblies.tsv` file	Report containing misassemblies, only when a reference fasta is provided `${prefix}_misassemblies.tsv`

#5 transcriptome tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}_transcriptome.tsv` file	Report containing all the alignments of transcriptome to the assembly, only when a reference fasta is provided `${prefix}_transcriptome.tsv`

#6 versions_quast tuple

`${task.process}` string	The name of the process
`quast` string	The name of the tool
`quast.py --version 2>&1 \| grep "QUAST" \| sed 's/^.QUAST v//; s/ .\$//'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
quast	QUAST calculates quality metrics for genome assemblies	http://bioinf.spbau.ru/quast

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:06:40 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fquast/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/quast/blobs/sha256:8a9ba351df1cbdabece2422c30ff3d2e01e1b05baf18756639a7b9e9af2f7b56
Size	3.9 KB