mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-13 05:13:09 +00:00
e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
46 lines
1.1 KiB
YAML
46 lines
1.1 KiB
YAML
name: lofreq_call
|
|
description: Lofreq subcommand to call low frequency variants from alignments
|
|
keywords:
|
|
- variant calling
|
|
- low frequency variant calling
|
|
- lofreq
|
|
- lofreq/call
|
|
tools:
|
|
- lofreq:
|
|
description: A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data
|
|
homepage: https://csb5.github.io/lofreq/
|
|
documentation: https://csb5.github.io/lofreq/commands/
|
|
doi: "10.1093/nar/gks918 "
|
|
licence: ["MIT"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bam:
|
|
type: file
|
|
description: BAM input file
|
|
pattern: "*.{bam}"
|
|
- fasta:
|
|
type: file
|
|
description: The reference fasta file
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- vcf:
|
|
type: file
|
|
description: VCF output file
|
|
pattern: "*.{vcf}"
|
|
|
|
authors:
|
|
- "@bjohnnyd"
|