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6d88f2da8c
* Rename process from STRINGTIE to STRINGTIE_STRINGTIE * Bump Stringtie version to 2.2.1 and remove empty files in tests * Fix tests for stringtie/merge Co-authored-by: Júlia Mir Pedrol <mirp.julia@gmail.com>
57 lines
1.4 KiB
YAML
57 lines
1.4 KiB
YAML
name: stringtie_stringtie
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description: Transcript assembly and quantification for RNA-Se
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keywords:
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- transcript
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- assembly
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- quantification
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- gtf
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tools:
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- stringtie2:
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description: |
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Transcript assembly and quantification for RNA-Seq
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homepage: https://ccb.jhu.edu/software/stringtie/index.shtml
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documentation: https://ccb.jhu.edu/software/stringtie/index.shtml?t=manual
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licence: ["MIT"]
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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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- bam:
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type: file
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description: |
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Stringtie transcript gtf output(s).
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- gtf:
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type: file
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description: |
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Annotation gtf file.
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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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- transcript_gtf:
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type: file
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description: transcript gtf
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pattern: "*.{transcripts.gtf}"
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- coverage_gtf:
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type: file
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description: coverage gtf
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pattern: "*.{coverage.gtf}"
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- abudance:
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type: file
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description: abudance
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pattern: "*.{abudance.txt}"
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- ballgown:
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type: file
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description: for running ballgown
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pattern: "*.{ballgown}"
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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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