Nextflow Registry | nf-core/fgbio/filterconsensusreads@0.0.0-0c7146d

nf-core/fgbio/filterconsensusreads @ 0.0.0-0c7146d

Uses FGBIO FilterConsensusReads to filter consensus reads generated by CallMolecularConsensusReads or CallDuplexConsensusReads.

fgbio filter consensus umi duplexumi

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @lescai

Maintainers: @lescai

Uses FGBIO FilterConsensusReads to filter consensus reads generated by CallMolecularConsensusReads or CallDuplexConsensusReads.

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

include { FGBIO_FILTERCONSENSUSREADS } from 'nf-core/fgbio/filterconsensusreads'

MIT License

Process

`Name`	`FGBIO_FILTERCONSENSUSREADS`

Input 5 channels

#1 tuple

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

#2 tuple

`meta2` map	Groovy Map containing genome information e.g. [ id:'test', single_end:false ]
`fasta` file	Fasta file containing genomic sequence information `*.{fa,fasta,fna}`
`index` file	Fasta index file `*.fai`
`dict` file	Fasta dictionary file `*.dict`

`min_reads` integer	Minimum number of reads required to keep a consensus read

`min_baseq` file	Minimum base quality to consider

`max_base_error_rate` file	Maximum base error rate for a position before it is replaced with an N.

Output 2 channels

#1 bam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.bam` file	Filtered consensus BAM file `*.bam`

#2 versions_fgbio tuple

`${task.process}` string	The process the versions were collected from
`fgbio` string	The tool name
`fgbio --version 2>&1 \| tr -d "[:cntrl:]" \| sed -e "s/^.Version: //;s/\[.$//"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
fgbio	A set of tools for working with genomic and high throughput sequencing data, including UMIs	http://fulcrumgenomics.github.io/fgbio/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:39:17 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ffgbio%2Ffilterconsensusreads/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/fgbio/filterconsensusreads/blobs/sha256:a5ea679e4a23e833788d9c7125631d54dbe37ba414bb75a20eb950808e5c2e31
Size	2.9 KB
Checksum	sha256:a5ea679e4a23e833788d9c7125631d54dbe37ba414bb75a20eb950808e5c2e31
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:39:17 (UTC)		1	2.9 KB	-