nf-core/lofreq/alnqual @ 0.0.0-0c7146d
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 | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:52:21 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Flofreq%2Falnqual/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/lofreq/alnqual/blobs/sha256:28a8a4a0da52a2820e099e29ad9f0dcfd9b375e70bfc57ba91d8a2228e82efcb |
| Size | 2.4 KB |
| Checksum | sha256:28a8a4a0da52a2820e099e29ad9f0dcfd9b375e70bfc57ba91d8a2228e82efcb |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:52:21 (UTC) | 1 | 2.4 KB | - |