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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>
38 lines
1 KiB
YAML
38 lines
1 KiB
YAML
name: rsem_preparereference
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description: Prepare a reference genome for RSEM
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keywords:
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- rsem
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- reference
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tools:
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- rseqc:
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description: |
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RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
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homepage: https://github.com/deweylab/RSEM
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documentation: https://github.com/deweylab/RSEM
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doi: https://doi.org/10.1186/1471-2105-12-323
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licence: ["GPL-3.0-or-later"]
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input:
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- fasta:
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type: file
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description: The Fasta file of the reference genome
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pattern: "*.{fasta,fa}"
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- gtf:
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type: file
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description: The GTF file of the reference genome
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pattern: "*.gtf"
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output:
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- rsem:
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type: directory
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description: RSEM index directory
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pattern: "rsem"
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- transcript_fasta:
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type: file
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description: Fasta file of transcripts
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pattern: "rsem/*transcripts.fa"
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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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authors:
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- "@drpatelh"
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- "@kevinmenden"
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