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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
58 lines
1.5 KiB
YAML
58 lines
1.5 KiB
YAML
name: deeptools_computematrix
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description: calculates scores per genome regions for other deeptools plotting utilities
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keywords:
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- genome
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- regions
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- scores
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- matrix
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tools:
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- deeptools:
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description: A set of user-friendly tools for normalization and visualization of deep-sequencing data
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homepage:
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documentation: https://deeptools.readthedocs.io/en/develop/index.html
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tool_dev_url: https://github.com/deeptools/deepTools
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doi: "10.1093/nar/gku365"
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licence: ['GPL v3']
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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' ]
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- bigwig:
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type: file
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description: bigwig file containing genomic scores
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pattern: "*.{bw,bigwig}"
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- bed:
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type: file
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description: bed file containing genomic regions
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pattern: "*.{bed}"
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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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- matrix:
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type: file
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description: |
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gzipped matrix file needed by the plotHeatmap and plotProfile
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deeptools utilities
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pattern: "*.{computeMatrix.mat.gz}"
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- table:
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type: file
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description: |
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tabular file containing the scores of the generated matrix
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pattern: "*.{computeMatrix.vals.mat.tab}"
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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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- "@jeremy1805"
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- "@emiller88"
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- "@drpatelh"
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- "@joseespinosa"
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