nf-core/lofreq/indelqual @ 0.0.0-3fc6d40
Summary
Inserts indel qualities in a BAM file
Get started
Add the following snippet to your workflow script to include this module.
include { LOFREQ_INDELQUAL } from 'nf-core/lofreq/indelqual'
License
MIT License
Process
Name
|
LOFREQ_INDELQUAL |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
BAM file *.{bam}
|
#2
tuple
meta2
map
|
Groovy Map containing sample information about the reference fasta e.g. [ id:'reference' ] |
|---|---|
fasta
file
|
Reference genome FASTA file *.{fasta,fa}
|
Output
2 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bam
file
|
BAM file with indel qualities inserted into it *.{bam}
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| lofreq | Lofreq is a fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data. It's indelqual programme inserts indel qualities in a BAM file | https://csb5.github.io/lofreq/ |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:19:32 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Flofreq%2Findelqual/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/lofreq/indelqual/blobs/sha256:cf13d1720550a4fa07b1a5e800e9955c519fd2faed91841fe4b914379e3f6b72 |
| Size | 2.5 KB |
| Checksum | sha256:cf13d1720550a4fa07b1a5e800e9955c519fd2faed91841fe4b914379e3f6b72 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:27:58 (UTC) | 4 | 2.5 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:19:32 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:14:25 (UTC) | 3 | 2.5 KB |