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https://github.com/MillironX/nf-core_modules.git
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5e7daa7b96
* Add --max--ppsize option * Add args to phantompeakqualtools and all the missing files (test, yml, ...) * Fix tests * Add the nextflow.config * Fix tests
60 lines
1.6 KiB
YAML
60 lines
1.6 KiB
YAML
name: "phantompeakqualtools"
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description:
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keywords:
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- "ChIP-Seq"
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- "QC"
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- "phantom peaks"
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tools:
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- "phantompeakqualtools":
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description: |
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"This package computes informative enrichment and quality measures
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for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used
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to obtain robust estimates of the predominant fragment length or
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characteristic tag shift values in these assays."
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homepage: "None"
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documentation: "https://github.com/kundajelab/phantompeakqualtools"
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tool_dev_url: "https://github.com/kundajelab/phantompeakqualtools"
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doi: "https://doi.org/10.1101/gr.136184.111"
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licence: "['BSD-3-clause']"
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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: BAM/CRAM/SAM file
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pattern: "*.{bam,cram,sam}"
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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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- 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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- spp:
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type: file
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description: |
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A ChIP-Seq Processing Pipeline file containing
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peakshift/phantomPeak results
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pattern: "*.{out}"
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- pdf:
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type: file
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description: A pdf containing save cross-correlation plots
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pattern: "*.{pdf}"
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- rdata:
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type: file
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description: Rdata file containing the R session
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pattern: "*.{Rdata}"
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authors:
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- "@drpatelh"
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- "@Emiller88"
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- "@JoseEspinosa"
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