mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-15 22:23:09 +00:00
47 lines
1.1 KiB
YAML
47 lines
1.1 KiB
YAML
|
name: "samtools_fasta"
|
||
|
|
description: Converts a SAM/BAM/CRAM file to FASTA
|
||
|
|
keywords:
|
||
|
|
- bam
|
||
|
|
- sam
|
||
|
|
- cram
|
||
|
|
- fasta
|
||
|
|
tools:
|
||
|
|
- "samtools":
|
||
|
|
description: "Tools for dealing with SAM, BAM and CRAM files"
|
||
|
|
homepage: "http://www.htslib.org"
|
||
|
|
documentation: "https://www.htslib.org/doc/samtools-fasta.html"
|
||
|
|
tool_dev_url: "https://github.com/samtools/samtools"
|
||
|
|
doi: "10.1093/bioinformatics/btp352"
|
||
|
|
licence: "['MIT']"
|
||
|
|
|
||
|
|
input:
|
||
|
|
# Only when we have meta
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- input:
|
||
|
|
type: file
|
||
|
|
description: BAM/CRAM/SAM file
|
||
|
|
pattern: "*.{bam,cram,sam}"
|
||
|
|
|
||
|
|
output:
|
||
|
|
#Only when we have meta
|
||
|
|
- 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"
|
||
|
|
- fasta:
|
||
|
|
type: file
|
||
|
|
description: compressed FASTA file
|
||
|
|
pattern: "*.fasta.gz"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@priyanka-surana"
|