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2f1555bf77
* feat(pints): Add initial caller module * docs(pints): Add initial documentation * chore: Add TODOs * test(pypints): Use docker image for singularity The image doesn't exist yet for some reason * test(pints): Remove unidirectional peaks hash * style(pints): Align emits
59 lines
1.5 KiB
YAML
59 lines
1.5 KiB
YAML
name: "pints_caller"
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description: Main caller script for peak calling
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keywords:
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- peak-calling
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- CoPRO
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- GRO-cap
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- PRO-cap
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- CAGE
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- NETCAGE
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- RAMPAGE
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- csRNA-seq
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- STRIPE-seq
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- PRO-seq
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- GRO-seq
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tools:
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- "pints":
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description: "Peak Identifier for Nascent Transcripts Starts (PINTS)"
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homepage: "https://pints.yulab.org/"
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documentation: "https://github.com/hyulab/PINTS/blob/main/README.md"
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tool_dev_url: "https://github.com/hyulab/PINTS"
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doi: "https://doi.org/10.1038/s41587-022-01211-7"
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licence: "['GPL']"
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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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- bams:
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type: file
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description: BAM/ file
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pattern: "*.{bam}"
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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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- divergent_TREs:
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type: file
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description: Divergent TREs
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pattern: "*_divergent_peaks.bed"
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- bidirectional_TREs:
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type: file
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description: Divergent TREs and convergent TREs
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pattern: "*_bidirectional_peaks.bed"
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- unidirectional_TREs:
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type: file
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description: Unidirectional TREs, maybe lncRNAs transcribed from enhancers (e-lncRNAs)
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pattern: "*_unidirectional_peaks.bed"
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authors:
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- "@Emiller88"
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