nf-core/lofreq/alnqual @ 0.0.0-3fc6d40
Summary
Lofreq subcommand to for insert base and indel alignment qualities
Get started
Add the following snippet to your workflow script to include this module.
include { LOFREQ_ALNQUAL } from 'nf-core/lofreq/alnqual'
License
MIT License
Process
Name
|
LOFREQ_ALNQUAL |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
bam
file
|
Sorted BAM/CRAM/SAM file *.{bam,cram,sam}
|
fasta
file
|
Reference genome FASTA file *.{fasta}
|
|---|
Output
2 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.bam
file
|
BAM/CRAM/SAM file with base and indel alignment qualities *.{bam,cram,sam}
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| lofreq | A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data | https://csb5.github.io/lofreq/ |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:19:27 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Flofreq%2Falnqual/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/lofreq/alnqual/blobs/sha256:78bd8ae02cd2ba3606b038ef4e52445c7d18ad4407b4074f97705f2a3942ed89 |
| Size | 2.5 KB |
| Checksum | sha256:78bd8ae02cd2ba3606b038ef4e52445c7d18ad4407b4074f97705f2a3942ed89 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:27:53 (UTC) | 3 | 2.5 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:19:27 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:14:17 (UTC) | 3 | 2.4 KB |