mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +00:00
794f84534b
* 📦 NEW: Add gstama/polyacleanup polyacleanup script remove remaining polyA tails from FLNC reads (Pacbio isoseq3) * 🐛 FIX: Prettier: replace simple quote by double quote * 🐛 FIX: Update TEMPLATE to nf-core 2.4 * 👌 IMPROVE: Compress outputs Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com>
55 lines
1.7 KiB
YAML
55 lines
1.7 KiB
YAML
name: gstama_polyacleanup
|
|
description: Helper script, remove remaining polyA sequences from Full Length Non Chimeric reads (Pacbio isoseq3)
|
|
keywords:
|
|
- gstama
|
|
- gstama/polyacleanup
|
|
- long-read
|
|
- isoseq
|
|
- tama
|
|
- trancriptome
|
|
- annotation
|
|
tools:
|
|
- gstama:
|
|
description: Gene-Switch Transcriptome Annotation by Modular Algorithms
|
|
homepage: https://github.com/sguizard/gs-tama
|
|
documentation: https://github.com/GenomeRIK/tama/wiki
|
|
tool_dev_url: https://github.com/sguizard/gs-tama
|
|
doi: "https://doi.org/10.1186/s12864-020-07123-7"
|
|
licence: ["GPL v3 License"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- fasta:
|
|
type: file
|
|
description: Full Length Non Chimeric reads in fasta format
|
|
pattern: "*.{fa,fasta}"
|
|
|
|
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"
|
|
- fasta:
|
|
type: file
|
|
description: The Full Length Non Chimeric reads clened from remaining polyA tails. The sequences are in FASTA format compressed with gzip.
|
|
pattern: "*_tama.fa.gz"
|
|
- report:
|
|
type: file
|
|
description: A text file describing the number of polyA tails removed and their length. Compressed with gzip.
|
|
pattern: "*_tama_polya_flnc_report.txt.gz"
|
|
- tails:
|
|
type: file
|
|
description: A gzip compressed FASTA file of trimmed polyA tails.
|
|
pattern: "*_tama_tails.fa.gz"
|
|
|
|
authors:
|
|
- "@sguizard"
|