mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 19:18:17 +00:00
71 lines
2 KiB
YAML
71 lines
2 KiB
YAML
|
name: "epang"
|
||
|
|
description: phylogenetic placement of query sequences in a reference tree
|
||
|
|
keywords:
|
||
|
|
- phylogeny
|
||
|
|
- phylogenetic placement
|
||
|
|
- sequences
|
||
|
|
tools:
|
||
|
|
- "epang":
|
||
|
|
description: "Massively parallel phylogenetic placement of genetic sequences"
|
||
|
|
homepage: "https://github.com/Pbdas/epa-ng"
|
||
|
|
documentation: "https://github.com/Pbdas/epa-ng/wiki/Full-Stack-Example"
|
||
|
|
tool_dev_url: "https://github.com/Pbdas/epa-ng"
|
||
|
|
doi: "https://doi.org/10.1093/sysbio/syy054"
|
||
|
|
licence: "['GNU Affero General Public License v3.0']"
|
||
|
|
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test' ]
|
||
|
|
- queryaln:
|
||
|
|
type: file
|
||
|
|
description: aligned query sequences in any supported format including phylip and fasta, may be gzipped
|
||
|
|
pattern: "*"
|
||
|
|
- referencealn:
|
||
|
|
type: file
|
||
|
|
description: reference alignment in any supported format including phylip and fasta, may be gzipped
|
||
|
|
pattern: "*"
|
||
|
|
- referencetree:
|
||
|
|
type: file
|
||
|
|
description: newick file containing the reference tree in which query sequences will be placed
|
||
|
|
pattern: "*"
|
||
|
|
- bfastfile:
|
||
|
|
type: file
|
||
|
|
description: file argument to the --bfast parameter
|
||
|
|
pattern: "*"
|
||
|
|
- splitfile:
|
||
|
|
type: file
|
||
|
|
description: file argument to the --split parameter
|
||
|
|
pattern: "*"
|
||
|
|
- binaryfile:
|
||
|
|
type: file
|
||
|
|
description: file argument to the --binary parameter
|
||
|
|
pattern: "*"
|
||
|
|
|
||
|
|
output:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test' ]
|
||
|
|
- epang:
|
||
|
|
type: directory
|
||
|
|
description: directory in which EPA-NG was run
|
||
|
|
- jplace:
|
||
|
|
type: file
|
||
|
|
description: file with placement information
|
||
|
|
pattern: "*.jplace"
|
||
|
|
- log:
|
||
|
|
type: file
|
||
|
|
description: log file from placement
|
||
|
|
pattern: "*.log"
|
||
|
|
- versions:
|
||
|
|
type: file
|
||
|
|
description: File containing software versions
|
||
|
|
pattern: "versions.yml"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@erikrikarddaniel"
|