nf-core/bedtools/bamtobed @ 0.0.0-3fc6d40
Summary
Converts a bam file to a bed12 file.
Get started
Add the following snippet to your workflow script to include this module.
include { BEDTOOLS_BAMTOBED } from 'nf-core/bedtools/bamtobed'
License
MIT License
Process
Name
|
BEDTOOLS_BAMTOBED |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
Input BAM file *.{bam}
|
Output
2 channels
#1
bed
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bed
file
|
Bed file containing genomic intervals. *.{bed}
|
#2
versions_bedtools
tuple
${task.process}
string
|
The name of the process |
|---|---|
bedtools
string
|
The name of the tool |
bedtools --version | sed -e 's/bedtools v//g'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| bedtools | A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types. | n/a |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:03:32 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fbedtools%2Fbamtobed/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bedtools/bamtobed/blobs/sha256:fdac7004a873374e4d7265ac92422f877f8fa66242694c24969028c8d7cb2a76 |
| Size | 2.2 KB |
| Checksum | sha256:fdac7004a873374e4d7265ac92422f877f8fa66242694c24969028c8d7cb2a76 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:05:28 (UTC) | 3 | 2.1 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:03:32 (UTC) | 3 | 2.2 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:46:46 (UTC) | 4 | 2.1 KB |