nf-core/biobambam/bammerge @ 0.0.0-0c7146d
Summary
Merge a list of sorted bam files
Get started
Add the following snippet to your workflow script to include this module.
include { BIOBAMBAM_BAMMERGE } from 'nf-core/biobambam/bammerge'
License
MIT License
Process
Name
|
BIOBAMBAM_BAMMERGE |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
List containing 1 or more bam files |
Output
4 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}.bam
file
|
Merged BAM file *.bam
|
#2
checksum
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.md5
file
|
Checksum file *.md5
|
#3
bam_index
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bai
file
|
BAM index file *.bai
|
#4
versions_biobambam
tuple
${task.process}
string
|
The name of the process |
|---|---|
biobambam
string
|
The name of the tool |
bammerge --version |& sed '1!d; s/.*version //; s/.\$//'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| biobambam | biobambam is a set of tools for early stage alignment file processing. | https://gitlab.com/german.tischler/biobambam2 |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:26:52 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbiobambam%2Fbammerge/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/biobambam/bammerge/blobs/sha256:4aacd5f243c31548522cbf968f98daf290ef958075442deb4c428880afee01b0 |
| Size | 2.5 KB |
| Checksum | sha256:4aacd5f243c31548522cbf968f98daf290ef958075442deb4c428880afee01b0 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:26:52 (UTC) | 1 | 2.5 KB | - |