Nextflow Registry | nf-core/bbmap/filterbyname@0.0.0-0c7146d

nf-core/bbmap/filterbyname @ 0.0.0-0c7146d

Filter out sequences by sequence header name(s)

fastq fasta filter

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @tokarevvasily @sppearce

Maintainers: @sppearce

Filter out sequences by sequence header name(s)

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

include { BBMAP_FILTERBYNAME } from 'nf-core/bbmap/filterbyname'

MIT License

Process

`Name`	`BBMAP_FILTERBYNAME`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`reads` file	List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.

`names_to_filter` string	String containing names of reads to filter out of the fastq files.

`output_format` string	String with the format of the output file, e.g. fastq.gz, fasta, fasta.bz2

`interleaved_output` boolean	Whether to produce an interleaved fastq output file

Output 3 channels

#1 log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.log` file	filterbyname.sh log file `*.filterbyname.log`

#2 reads tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.${output_format}` file	The trimmed/modified fastq reads `*${output_format}`

#3 versions_bbmap tuple

`${task.process}` string	The name of the process
`bbmap` string	The name of the tool
`bbversion.sh \| grep -v "Duplicate cpuset"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
bbmap	BBMap is a short read aligner, as well as various other bioinformatic tools.	https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/clumpify-guide/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:24:47 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbbmap%2Ffilterbyname/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bbmap/filterbyname/blobs/sha256:e7fbef9d284fdcf7e42fe9c55f81f08bc58cff18332c15317021f77163a6f24f
Size	3.5 KB
Checksum	sha256:e7fbef9d284fdcf7e42fe9c55f81f08bc58cff18332c15317021f77163a6f24f
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:24:47 (UTC)		1	3.5 KB	-