nf-core/cmseq/polymut @ 0.0.0-6c4ed3a
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 | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:10:33 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fcmseq%2Fpolymut/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/cmseq/polymut/blobs/sha256:2bbf0ed1255d22bdd2b73449839c5d9268904519e820467de53552595827f876 |
| Size | 2.5 KB |
| Checksum | sha256:2bbf0ed1255d22bdd2b73449839c5d9268904519e820467de53552595827f876 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:10:33 (UTC) | 3 | 2.5 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:07:09 (UTC) | 3 | 2.6 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:52:56 (UTC) | 3 | 2.5 KB |