nf-core/cellrangerarc/mkgtf @ 0.0.0-3fc6d40
Summary
Module to build a filtered gtf needed by the 10x Genomics Cell Ranger Arc tool. Uses the cellranger-arc mkgtf command.
Get started
Add the following snippet to your workflow script to include this module.
include { CELLRANGERARC_MKGTF } from 'nf-core/cellrangerarc/mkgtf'
License
MIT License
Process
Name
|
CELLRANGERARC_MKGTF |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
gtf
file
|
The reference GTF transcriptome file *.gtf
|
Output
2 channels
#1
gtf
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}.gtf
directory
|
The filtered GTF transcriptome file ${prefix}.gtf
|
#2
versions_cellrangerarc
tuple
${task.process}
string
|
The name of the process |
|---|---|
cellrangerarc
string
|
The name of the tool |
cellranger-arc --version 2>&1 | sed 's/cellranger-arc cellranger-arc-//'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| cellrangerarc | Cell Ranger Arc by 10x Genomics is a set of analysis pipelines that process Chromium single-cell data to align reads, generate feature-barcode matrices, perform clustering and other secondary analysis, and more. | https://support.10xgenomics.com/single-cell-multiome-atac-gex/software/pipelines/latest/what-is-cell-ranger-arc |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 3fc6d40d163d89ae44d40a00b9017d5a9df5170e |
| Release Date | 22 Apr 2026 15:05:33 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fcellrangerarc%2Fmkgtf/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/cellrangerarc/mkgtf/blobs/sha256:5b74fc13f8f53daa41da491fb83a72cf670b61b56d06586dae956430b84cac26 |
| Size | 2.4 KB |
| Checksum | sha256:5b74fc13f8f53daa41da491fb83a72cf670b61b56d06586dae956430b84cac26 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-3fc6d40 | 22 Apr 2026 15:05:33 (UTC) | 3 | 2.4 KB | |
| 0.0.0-5d5b444 | 21 Apr 2026 15:00:43 (UTC) | 4 | 2.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:51:03 (UTC) | 3 | 2.3 KB |