mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +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>
59 lines
1.9 KiB
YAML
59 lines
1.9 KiB
YAML
name: transdecoder_predict
|
|
description: TransDecoder identifies candidate coding regions within transcript sequences. It is used to build gff file. You can use this module after transdecoder_longorf
|
|
keywords:
|
|
- eukaryotes
|
|
- gff
|
|
|
|
tools:
|
|
- transdecoder:
|
|
description: TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks.
|
|
homepage: https://github.com/TransDecoder
|
|
documentation: https://github.com/TransDecoder/TransDecoder/wiki
|
|
tool_dev_url: https://github.com/TransDecoder/TransDecoder
|
|
doi: ""
|
|
licence: ["Broad Institute"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- fasta:
|
|
type: file
|
|
description: fasta file
|
|
pattern: "*.{fasta}"
|
|
- fold:
|
|
type: folder
|
|
description: Output from the module transdecoder_longorf
|
|
pattern: "*"
|
|
|
|
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"
|
|
- pep:
|
|
type: amino acids fasta file
|
|
description: All ORFs meeting the minimum length criteria, regardless of coding potential
|
|
pattern: "*.{pep}"
|
|
- gff3:
|
|
type: gff3 file
|
|
description: Positions of all ORFs as found in the target transcripts
|
|
pattern: "*.{gff3}"
|
|
- cds:
|
|
type: nucleotide fasta file
|
|
description: the nucleotide coding sequence for all detected ORFs
|
|
pattern: "*{cds}"
|
|
- bed:
|
|
type: bed file
|
|
description: bed file
|
|
pattern: "*{bed}"
|
|
|
|
authors:
|
|
- "@Danilo2771"
|