nf-core/happy/ftxpy @ 0.0.0-0c7146d
Summary
Somatic VCF Feature Extraction tool from hap.y.
Get started
Add the following snippet to your workflow script to include this module.
include { HAPPY_FTXPY } from 'nf-core/happy/ftxpy'
License
MIT License
Process
Name
|
HAPPY_FTXPY |
|---|
Input
3 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test'] |
|---|---|
vcf
file
|
VCF file to process *.{vcf,vcf.gz}
|
regions_bed
file
|
BED file. Restrict analysis to given (sparse) regions. *.bed
|
targets_bed
file
|
Restrict analysis to given (dense) regions. *.bed
|
bam
file
|
Pass one or more BAM files for feature table extraction *.bam
|
#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
features
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.csv
file
|
Fuature table *.csv
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| 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 | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:08:41 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fhappy%2Fftxpy/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/happy/ftxpy/blobs/sha256:b996342a41a746defc26b823a8eb1c2503b2adedaa056463a2739969005bbe15 |
| Size | 2.8 KB |
| Checksum | sha256:b996342a41a746defc26b823a8eb1c2503b2adedaa056463a2739969005bbe15 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:23:33 (UTC) | 4 | 2.8 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:16:03 (UTC) | 2 | 2.9 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:08:41 (UTC) | 3 | 2.8 KB |