Nextflow Registry | nf-core/ivar/trim@0.0.0-0c7146d

nf-core/ivar/trim @ 0.0.0-0c7146d

Trim primer sequences rom a BAM file with iVar

amplicon sequencing trimming fasta

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @andersgs @drpatelh

Maintainers: @andersgs @drpatelh

Trim primer sequences rom a BAM file with iVar

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

include { IVAR_TRIM } from 'nf-core/ivar/trim'

MIT License

Process

`Name`	`IVAR_TRIM`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	Co-ordinate sorted BAM file `*.bam`
`bai` file	Index file for co-ordinate sorted BAM file `*.bai`

`bed` file	BED file with primer labels and positions `*.bed`

Output 3 channels

#1 bam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bam` file	iVar generated trimmed bam file (unsorted) `*.bam`

#2 log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.log` file	Log file generated by iVar for use with MultiQC `*.log`

#3 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
ivar	iVar - a computational package that contains functions broadly useful for viral amplicon-based sequencing.	https://github.com/andersen-lab/ivar

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:49:39 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fivar%2Ftrim/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/ivar/trim/blobs/sha256:aff8fa16e76b43e161f914ad2737b93fc8361fe0173ee54c5f84c6e4515898f9
Size	2.4 KB
Checksum	sha256:aff8fa16e76b43e161f914ad2737b93fc8361fe0173ee54c5f84c6e4515898f9
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:49:39 (UTC)		1	2.4 KB	-