nf-core/bbmap/bbmerge @ 0.0.0-6c4ed3a
Summary
Merging overlapping paired reads into a single read.
Get started
Add the following snippet to your workflow script to include this module.
include { BBMAP_BBMERGE } from 'nf-core/bbmap/bbmerge'
License
MIT License
Process
Name
|
BBMAP_BBMERGE |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
reads
file
|
List of input paired end fastq files *.{fastq,fq}.gz
|
interleave
boolean
|
Indicates whether the input paired reads are interleaved or not |
|---|
Output
5 channels
#1
log
*.log
file
|
log file containing stdout and stderr from bbmerge.sh *.log
|
|---|
#2
ihist
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*_ihist.txt
file
|
insert size histogram *_ihist.txt
|
#3
merged
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*_merged.fastq.gz
file
|
merged reads *_merged.fastq
|
#4
unmerged
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*_unmerged.fastq.gz
file
|
unmerged reads *_unmerged.fastq
|
#5
versions_bbmap
tuple
${task.process}
string
|
The name of the process |
|---|---|
bbmap
string
|
The name of the tool |
bbversion.sh | grep -v "Duplicate cpuset"
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| bbmap | BBMap is a short read aligner, as well as various other bioinformatic tools. | https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/ |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:04:35 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fbbmap%2Fbbmerge/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bbmap/bbmerge/blobs/sha256:0fd13a7f8dcff2c6cd6c64a8bfc9a3d9c272078ab1a5e7da3b22132c76d5cb00 |
| Size | 3.2 KB |
| Checksum | sha256:0fd13a7f8dcff2c6cd6c64a8bfc9a3d9c272078ab1a5e7da3b22132c76d5cb00 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:04:35 (UTC) | 4 | 3.2 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:45:23 (UTC) | 3 | 3.2 KB |