mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 21:53:10 +00:00
906577873b
* New functions.nf * Convert code to create versions.yml * Update meta.yml * update output channel * Fix more meta.yml * Manually update remaining modules * remove superflous echo * Fix misformatted meta.yml files * Fix yaml, was list instead of dict * fix version for bcftools Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
79 lines
2.3 KiB
YAML
79 lines
2.3 KiB
YAML
name: last_mafconvert
|
|
description: Converts MAF alignments in another format.
|
|
keywords:
|
|
- LAST
|
|
- convert
|
|
- alignment
|
|
- MAF
|
|
tools:
|
|
- last:
|
|
description: LAST finds & aligns related regions of sequences.
|
|
homepage: https://gitlab.com/mcfrith/last
|
|
documentation: https://gitlab.com/mcfrith/last/-/blob/main/doc/
|
|
tool_dev_url: https://gitlab.com/mcfrith/last
|
|
doi: ""
|
|
licence: ['GPL v3-or-later']
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- maf:
|
|
type: file
|
|
description: Multiple Aligment Format (MAF) file, optionally compressed with gzip
|
|
pattern: "*.{maf.gz,maf}"
|
|
- format:
|
|
type: value
|
|
description: Output format (one of axt, blast, blasttab, chain, gff, html, psl, sam, or tab)
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
- axt_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in Axt (Blastz) format (optional)
|
|
pattern: "*.axt.gz"
|
|
- blast_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in blast format (optional)
|
|
pattern: "*.blast.gz"
|
|
- blasttab_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in blasttab format (optional)
|
|
pattern: "*.blasttab.gz"
|
|
- chain_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in UCSC chain format (optional)
|
|
pattern: "*.chain.gz"
|
|
- gff_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in GFF format (optional)
|
|
pattern: "*.gff.gz"
|
|
- html_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in HTML format (optional)
|
|
pattern: "*.html.gz"
|
|
- psl_gz:
|
|
type: file
|
|
description: Gzipped pairwise alignment in PSL (BLAT) format (optional)
|
|
pattern: "*.psl.gz"
|
|
- SAM:
|
|
type: file
|
|
description: Gzipped pairwise alignment in SAM format (optional)
|
|
pattern: "*.sam.gz"
|
|
- tab:
|
|
type: file
|
|
description: Gzipped pairwise alignment in TAB format (optional)
|
|
pattern: "*.tab.gz"
|
|
|
|
authors:
|
|
- "@aleksandrabliznina"
|