nf-core/angsd/contamination @ 0.0.0-6c4ed3a
Summary
A tool to estimate nuclear contamination in males based on heterozygosity in the female chromosome.
Get started
Add the following snippet to your workflow script to include this module.
include { ANGSD_CONTAMINATION } from 'nf-core/angsd/contamination'
License
MIT License
Process
Name
|
ANGSD_CONTAMINATION |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
icounts
file
|
Internal format for dumping binary single chrs. Useful for ANGSD contamination *.icnts.gz
|
#2
tuple
meta2
map
|
Groovy Map containing information related to the hapmap_file. e.g. [ id:'test' ] |
|---|---|
hapmap_file
file
|
A list of variable sites to look for heterozygosity. |
Output
2 channels
#1
txt
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.txt
file
|
Contamination estimation output. *.txt
|
#2
versions_angsd
tuple
${task.process}
string
|
The name of the process |
|---|---|
angsd
string
|
The name of the tool |
angsd 2>&1 | sed '1!d;s/.*version: //;s/ .*//'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| angsd | ANGSD: Analysis of next generation Sequencing Data | http://www.popgen.dk/angsd/ |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:02:20 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fangsd%2Fcontamination/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/angsd/contamination/blobs/sha256:a7cc6e36f582c8e725ea252789f0db90c3bb0b108496ac4d72978f548551b894 |
| Size | 2.7 KB |
| Checksum | sha256:a7cc6e36f582c8e725ea252789f0db90c3bb0b108496ac4d72978f548551b894 |
| Downloads | 2 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:02:20 (UTC) | 2 | 2.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:01:42 (UTC) | 3 | 2.7 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:42:34 (UTC) | 3 | 2.6 KB |