nf-core/happy/prepy @ 0.0.0-0c7146d
Summary
Pre.py is a preprocessing tool made to preprocess VCF files for Hap.py
Get started
Add the following snippet to your workflow script to include this module.
include { HAPPY_PREPY } from 'nf-core/happy/prepy'
License
MIT License
Process
Name
|
HAPPY_PREPY |
|---|
Input
3 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
vcf
file
|
VCF file to preprocess *.{vcf,vcf.gz}
|
bed
file
|
BED file *.bed
|
#2
tuple
meta2
map
|
Groovy Map containing sample information for reference fasta e.g. [ id:'test2'] |
|---|---|
fasta
file
|
FASTA file of the reference genome *.{fa,fasta}
|
#3
tuple
meta3
map
|
Groovy Map containing sample information for reference fai e.g. [ id:'test3' ] |
|---|---|
fasta_fai
file
|
The index of the reference FASTA *.fai
|
Output
2 channels
#1
versions_happy
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
happy
string
|
The tool name |
0.3.15
string
|
The expression to obtain the version of the tool |
#2
preprocessed_vcf
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.vcf.gz
file
|
Preprocessed VCF file *.vcf.gz
|
| Tool | Description | Homepage |
|---|---|---|
| happy | Haplotype VCF comparison tools | https://www.illumina.com/products/by-type/informatics-products/basespace-sequence-hub/apps/hap-py-benchmarking.html |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:46:56 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fhappy%2Fprepy/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/happy/prepy/blobs/sha256:dc18e5ef0b188a6e5fd07bfcfad3dd95d986ba4ba97afbfcc7c28fe48e22b1c7 |
| Size | 3.2 KB |
| Checksum | sha256:dc18e5ef0b188a6e5fd07bfcfad3dd95d986ba4ba97afbfcc7c28fe48e22b1c7 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:46:56 (UTC) | 1 | 3.2 KB | - |