Nextflow Registry | nf-core/opt/flip@0.0.0-0c7146d

nf-core/opt/flip @ 0.0.0-0c7146d

flip corrects probes that are aligning to the opposite strand of their intended target genes by reverse complementing them

opt opt flip transcripts off-target probes align probes

Latest version: 0.0.0-3fc6d40

Total downloads: 7

Source: nf-core/modules

Authors: @khersameesh24

Maintainers: @khersameesh24

flip corrects probes that are aligning to the opposite strand of their intended target genes by reverse complementing them

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

include { OPT_FLIP } from 'nf-core/opt/flip'

MIT License

Process

`Name`	`OPT_FLIP`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information of the probe panel sequences used for the xenium experiment e.g. `[ id:'breast_cancer_probe_panel_sequences' ]`
`probes_fasta` file	Fasta file for the probe sequences used in the xenium experiment `*.fasta`

#2 tuple

`meta2` map	Groovy Map containing the information of the genomic features and fasta files used as references e.g. `[ id:'gencode_references' ]`
`ref_annot_gff` file	Reference annotations in gff format `*.gff`
`ref_annot_fa` file	Reference annotations in fasta format `*.fa`

Output 2 channels

#1 versions

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

#2 fwd_oriented_fa tuple

`meta` map	Groovy Map containing information of the forward oriented fasta generated with the probes panel sequences 'opt flip' e.g. `[ id:'breast_cancer_probe_panel_sequences' ]`
`${meta.id}/fwd_oriented.fa` file	The forward oriented fasta file `*.fa`

Tool	Description	Homepage
opt	opt is a simple program that aligns probe sequences to transcript sequences to detect potential off-target probe activity	https://github.com/JEFworks-Lab/off-target-probe-tracker

Version	0.0.0-0c7146d
Commit ID	3fc6d40d163d89ae44d40a00b9017d5a9df5170e
Release Date	08 Apr 2026 19:22:27 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fopt%2Fflip/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/opt/flip/blobs/sha256:d1f83c3a418559b82836883e0491583854b0c84eab7a65472e4c6f6e457aa7e3
Size	2.4 KB
Checksum	sha256:d1f83c3a418559b82836883e0491583854b0c84eab7a65472e4c6f6e457aa7e3
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-3fc6d40	22 Apr 2026 15:24:16 (UTC)		4	2.4 KB
0.0.0-0c7146d	08 Apr 2026 19:22:27 (UTC)		3	2.4 KB