nf-core/biscuit/vcf2bed @ 0.0.0-0c7146d
Summary
Summarizes methylation or SNV information from a Biscuit VCF in a standard-compliant BED file.
Get started
Add the following snippet to your workflow script to include this module.
include { BISCUIT_VCF2BED } from 'nf-core/biscuit/vcf2bed'
License
MIT License
Process
Name
|
BISCUIT_VCF2BED |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
vcf
file
|
Biscuit vcf file (output of biscuit pileup) |
Output
3 channels
#1
bed
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bed.gz
file
|
Gzipped BED file with methylation or SNV information *.{bed.gz}
|
#2
versions_biscuit
tuple
${task.process}
string
|
The name of the process |
|---|---|
biscuit
string
|
The name of the tool |
biscuit version |& sed '1!d; s/^.*BISCUIT Version: //'
eval
|
The expression to obtain the version of the tool |
#3
versions_samtools
tuple
${task.process}
string
|
The name of the process |
|---|---|
samtools
string
|
The name of the tool |
samtools --version |& sed '1!d; s/^.*samtools //'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| biscuit | A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data | https://huishenlab.github.io/biscuit/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 18:48:02 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fbiscuit%2Fvcf2bed/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/biscuit/vcf2bed/blobs/sha256:b60551007c2e47ff3d5abd8b3ce5a8bbbceddff3dcef72c967e0c5919b6dc8da |
| Size | 2.4 KB |
| Checksum | sha256:b60551007c2e47ff3d5abd8b3ce5a8bbbceddff3dcef72c967e0c5919b6dc8da |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:06:28 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:48:02 (UTC) | 3 | 2.4 KB |