nf-core/cmseq/polymut @ 0.0.0-0c7146d
Summary
Calculates polymorphic site rates over protein coding genes
Get started
Add the following snippet to your workflow script to include this module.
include { CMSEQ_POLYMUT } from 'nf-core/cmseq/polymut'
License
MIT License
Process
Name
|
CMSEQ_POLYMUT |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
BAM file *.bam
|
bai
file
|
BAM index file *.bai
|
gff
file
|
GFF file used to extract protein-coding genes *.gff
|
fasta
file
|
Optional fasta file to run on a subset of references in the BAM file. .{fa,fasta,fas,fna}
|
Output
2 channels
#1
polymut
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.txt
file
|
Polymut report in *.txt
|
#2
versions_cmseq
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
cmseq
string
|
The tool name |
VERSION
string
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| cmseq | Set of utilities on sequences and BAM files | https://github.com/SegataLab/cmseq |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:31:36 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcmseq%2Fpolymut/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/cmseq/polymut/blobs/sha256:3065d386098366ba19113e7be8825049d7e66d369207cf5979f37e05372d7133 |
| Size | 2.6 KB |
| Checksum | sha256:3065d386098366ba19113e7be8825049d7e66d369207cf5979f37e05372d7133 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:31:36 (UTC) | 1 | 2.6 KB | - |