nf-core/mudskipper/bulk @ 0.0.0-0c7146d
Summary
Convert genomic BAM/SAM files to transcriptomic BAM/RAD files.
Get started
Add the following snippet to your workflow script to include this module.
include { MUDSKIPPER_BULK } from 'nf-core/mudskipper/bulk'
License
MIT License
Process
Name
|
MUDSKIPPER_BULK |
|---|
Input
4 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
bam
file
|
Name-Sorted BAM/CRAM/SAM file *.{bam,cram,sam}
|
index
directory
|
Annotation index created by mudskipper/index |
|---|
gtf
file
|
Annotation file *.{gtf,gff,gff3}
|
|---|
rad
string
|
File type |
|---|
Output
3 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
${prefix}.bam
file
|
Sorted BAM file *.bam
|
#2
rad
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
${prefix}.rad
file
|
RAD file *.rad
|
#3
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| mudskipper | mudskipper is a tool for converting genomic BAM/SAM files to transcriptomic BAM/RAD files. | https://github.com/OceanGenomics/mudskipper |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:57:51 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fmudskipper%2Fbulk/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/mudskipper/bulk/blobs/sha256:b22e15b9605985d5c3e7ef275ca2b6609460db6fb27cb978c6a0cae3bd28a53d |
| Size | 2.7 KB |
| Checksum | sha256:b22e15b9605985d5c3e7ef275ca2b6609460db6fb27cb978c6a0cae3bd28a53d |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:57:51 (UTC) | 1 | 2.7 KB | - |