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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
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description: Helper script, remove remaining polyA sequences from Full Length Non Chimeric reads (Pacbio isoseq3)
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keywords:
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- gstama
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- gstama/polyacleanup
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- long-read
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- isoseq
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- tama
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- trancriptome
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- annotation
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tools:
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- gstama:
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description: Gene-Switch Transcriptome Annotation by Modular Algorithms
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homepage: https://github.com/sguizard/gs-tama
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documentation: https://github.com/GenomeRIK/tama/wiki
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tool_dev_url: https://github.com/sguizard/gs-tama
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doi: "https://doi.org/10.1186/s12864-020-07123-7"
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licence: ["GPL v3 License"]
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- fasta:
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type: file
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description: Full Length Non Chimeric reads in fasta format
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pattern: "*.{fa,fasta}"
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- fasta:
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type: file
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description: The Full Length Non Chimeric reads clened from remaining polyA tails. The sequences are in FASTA format compressed with gzip.
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pattern: "*_tama.fa.gz"
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- report:
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type: file
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description: A text file describing the number of polyA tails removed and their length. Compressed with gzip.
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pattern: "*_tama_polya_flnc_report.txt.gz"
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- tails:
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type: file
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description: A gzip compressed FASTA file of trimmed polyA tails.
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pattern: "*_tama_tails.fa.gz"
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authors:
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- "@sguizard"
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