Nextflow Registry | nf-core/bbmap/filterbyname@0.0.0-6c4ed3a

nf-core/bbmap/filterbyname @ 0.0.0-6c4ed3a

Filter out sequences by sequence header name(s)

fastq fasta filter

Latest version: 0.0.0-6c4ed3a

Total downloads: 4

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	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:04:40 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbbmap%2Ffilterbyname/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bbmap/filterbyname/blobs/sha256:8575911a91588fc88c4e1fe4d4ffe482bde76063738aa230819fc345863c9f1f
Size	3.5 KB
Checksum	sha256:8575911a91588fc88c4e1fe4d4ffe482bde76063738aa230819fc345863c9f1f
Downloads	2

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:04:40 (UTC)		2	3.5 KB
0.0.0-0c7146d	08 Apr 2026 18:45:30 (UTC)		2	3.5 KB