mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-15 14:13:09 +00:00
56 lines
1.5 KiB
YAML
56 lines
1.5 KiB
YAML
|
name: "gappa_examineassign"
|
||
|
|
description: assigns taxonomy to query sequences in phylogenetic placement output
|
||
|
|
keywords:
|
||
|
|
- phylogeny
|
||
|
|
- phylogenetic placement
|
||
|
|
- classification
|
||
|
|
- taxonomy
|
||
|
|
tools:
|
||
|
|
- "gappa":
|
||
|
|
description: "Genesis Applications for Phylogenetic Placement Analysis"
|
||
|
|
homepage: "https://github.com/lczech/gappa"
|
||
|
|
documentation: "https://github.com/lczech/gappa/wiki"
|
||
|
|
tool_dev_url: "https://github.com/lczech/gappa"
|
||
|
|
doi: "https://doi.org/10.1093/bioinformatics/btaa070"
|
||
|
|
licence: "['GPL v3']"
|
||
|
|
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test' ]
|
||
|
|
- jplace:
|
||
|
|
type: file
|
||
|
|
description: jplace file output from phylogenetic placement, e.g. EPA-NG, gzipped or not
|
||
|
|
pattern: "*.{jplace,jplace.gz}"
|
||
|
|
|
||
|
|
output:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test' ]
|
||
|
|
- examineassign:
|
||
|
|
type: directory
|
||
|
|
description: Execution directory
|
||
|
|
- profile:
|
||
|
|
type: file
|
||
|
|
description: profile tsv file
|
||
|
|
pattern: "*profile.tsv"
|
||
|
|
- labelled_tree:
|
||
|
|
type: file
|
||
|
|
description: labelled tree in newick format
|
||
|
|
pattern: "*labelled_tree.newick"
|
||
|
|
- per_query:
|
||
|
|
type: file
|
||
|
|
description: per query taxonomy assignments in tsv format
|
||
|
|
pattern: "*per_query.tsv"
|
||
|
|
- versions:
|
||
|
|
type: file
|
||
|
|
description: File containing software versions
|
||
|
|
pattern: "versions.yml"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@erikrikarddaniel"
|