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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
47 lines
1.2 KiB
YAML
47 lines
1.2 KiB
YAML
name: homer_annotatepeaks
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description: Annotate peaks with homer
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keywords:
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- annotations
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- peaks
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- bed
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tools:
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- cuatadapt:
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description: |
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HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and next-gen sequencing analysis.
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documentation: http://homer.ucsd.edu/homer/
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doi: 10.1016/j.molcel.2010.05.004.
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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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- peaks:
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type: file
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description: The peak files in bed format
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pattern: "*.bed"
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- fasta:
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type: file
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description: Fasta file of reference genome
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pattern: "*.fasta"
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- gtf:
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type: file
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description: GTF file of reference genome
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pattern: "*.gtf"
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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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- annotated_peaks:
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type: file
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description: The annotated peaks
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pattern: "*annotatePeaks.txt"
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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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