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* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
37 lines
1,017 B
YAML
37 lines
1,017 B
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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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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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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authors:
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- "@drpatelh"
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- "@kevinmenden"
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