mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 21:53:10 +00:00
60 lines
1.5 KiB
YAML
60 lines
1.5 KiB
YAML
|
name: "pints_caller"
|
||
|
|
description: Main caller script for peak calling
|
||
|
|
keywords:
|
||
|
|
- peak-calling
|
||
|
|
- CoPRO
|
||
|
|
- GRO-cap
|
||
|
|
- PRO-cap
|
||
|
|
- CAGE
|
||
|
|
- NETCAGE
|
||
|
|
- RAMPAGE
|
||
|
|
- csRNA-seq
|
||
|
|
- STRIPE-seq
|
||
|
|
- PRO-seq
|
||
|
|
- GRO-seq
|
||
|
|
tools:
|
||
|
|
- "pints":
|
||
|
|
description: "Peak Identifier for Nascent Transcripts Starts (PINTS)"
|
||
|
|
homepage: "https://pints.yulab.org/"
|
||
|
|
documentation: "https://github.com/hyulab/PINTS/blob/main/README.md"
|
||
|
|
tool_dev_url: "https://github.com/hyulab/PINTS"
|
||
|
|
doi: "https://doi.org/10.1038/s41587-022-01211-7"
|
||
|
|
licence: "['GPL']"
|
||
|
|
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- bams:
|
||
|
|
type: file
|
||
|
|
description: BAM/ file
|
||
|
|
pattern: "*.{bam}"
|
||
|
|
|
||
|
|
output:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- versions:
|
||
|
|
type: file
|
||
|
|
description: File containing software versions
|
||
|
|
pattern: "versions.yml"
|
||
|
|
- divergent_TREs:
|
||
|
|
type: file
|
||
|
|
description: Divergent TREs
|
||
|
|
pattern: "*_divergent_peaks.bed"
|
||
|
|
- bidirectional_TREs:
|
||
|
|
type: file
|
||
|
|
description: Divergent TREs and convergent TREs
|
||
|
|
pattern: "*_bidirectional_peaks.bed"
|
||
|
|
- unidirectional_TREs:
|
||
|
|
type: file
|
||
|
|
description: Unidirectional TREs, maybe lncRNAs transcribed from enhancers (e-lncRNAs)
|
||
|
|
pattern: "*_unidirectional_peaks.bed"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@Emiller88"
|