mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 13:43:09 +00:00
9fb26ae462
* Add IDR module * Add meta and implement main todos * Modifying idr tests * Update tests/config/test_data.config Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/config/test_data.config Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update main.nf * Update tests/config/test_data.config Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update test with new file name Co-authored-by: Jose Espinosa-Carrasco <kadomu@gmail.com>
53 lines
1.3 KiB
YAML
53 lines
1.3 KiB
YAML
name: idr
|
|
description: |
|
|
Measures reproducibility of ChIP-seq, ATAC-seq peaks using IDR (Irreproducible
|
|
Discovery Rate)
|
|
keywords:
|
|
- IDR
|
|
- peaks
|
|
- ChIP-seq
|
|
- ATAC-seq
|
|
tools:
|
|
- idr:
|
|
description: |
|
|
The IDR (Irreproducible Discovery Rate) framework is a unified approach
|
|
to measure the reproducibility of findings identified from replicate
|
|
experiments and provide highly stable thresholds based on reproducibility.
|
|
homepage: None
|
|
documentation: None
|
|
tool_dev_url: https://github.com/kundajelab/idr
|
|
doi: ""
|
|
licence: ['GPL v2']
|
|
input:
|
|
- peaks:
|
|
type: tuple of two files
|
|
description: BED, narrowPeak or broadPeak files of replicates
|
|
pattern: "*"
|
|
- peak_type:
|
|
type: value
|
|
description: Type of peak file
|
|
pattern: "{narrowPeak,broadPeak,bed}"
|
|
- prefix:
|
|
type: value
|
|
description: Prefix for output files
|
|
output:
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- idr:
|
|
type: file
|
|
description: Text file containing IDR values
|
|
pattern: "*.{txt}"
|
|
- log:
|
|
type: file
|
|
description: Log file
|
|
pattern: "*.{txt}"
|
|
- png:
|
|
type: file
|
|
description: Plot generated by idr
|
|
pattern: "*{.png}"
|
|
|
|
authors:
|
|
- "@drpatelh"
|
|
- "@joseespinosa"
|