nf-core/eagle2 @ 0.0.0-0c7146d
Summary
Perform phasing of genotyped data with or without a reference panel
Get started
Add the following snippet to your workflow script to include this module.
include { EAGLE2 } from 'nf-core/eagle2'
License
MIT License
Process
Name
|
EAGLE2 |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
input
file
|
Vcf file containing genotyped cohort or target samples to phase *.{vcf,vcf.gz,bcf}
|
index
file
|
Input file index *.{csi,tbi}
|
ref_vcf
file
|
Reference panel to phase the genotyped cohort *.{vcf,vcf.gz,bcf}
|
ref_index
file
|
Reference panel index *.{csi,tbi}
|
map
file
|
Genetic map file *.{txt,txt.gz,map,map.gz}
|
Output
2 channels
#1
phased_variants
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.{vcf,vcf.gz,bcf}
file
|
Input phased variants *.{vcf,vcf.gz,bcf}
|
#2
versions_eagle2
tuple
${task.process}
string
|
The name of the process |
|---|---|
eagle2
string
|
The name of the tool |
eagle --help | sed -n 's/.*Eagle v\([0-9.]\+\).*/\1/p'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| eagle2 | The Eagle software estimates haplotype phase either within a genotyped cohort or using a phased reference panel. | https://alkesgroup.broadinstitute.org/Eagle/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 0b45cc097cafcd4768e2f79b504333fee85940bc |
| Release Date | 08 Apr 2026 18:36:39 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Feagle2/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/eagle2/blobs/sha256:c28dbf09620be34b4422c0d8d840804856b7f70b5ea4731a3f0ea8bc7076b8c9 |
| Size | 2.9 KB |
| Checksum | sha256:c28dbf09620be34b4422c0d8d840804856b7f70b5ea4731a3f0ea8bc7076b8c9 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0b45cc0 | 29 Apr 2026 21:15:22 (UTC) | 0 | 2.9 KB | ↔ | |
| 0.0.0-0c7146d | 08 Apr 2026 18:36:39 (UTC) | 1 | 2.9 KB | - |