Description

Measures reproducibility of ChIP-seq, ATAC-seq peaks using IDR (Irreproducible Discovery Rate)

Input

Name (Type)
Description
Pattern

peaks (tuple of two files)

BED, narrowPeak or broadPeak files of replicates

*

peak_type (value)

Type of peak file

{narrowPeak,broadPeak,bed}

prefix (value)

Prefix for output files

Output

Name (Type)
Description
Pattern

versions (file)

File containing software versions

versions.yml

idr (file)

Text file containing IDR values

*.{txt}

log (file)

Log file

*.{txt}

png (file)

Plot generated by idr

*{.png}
maintainers
Github user drpatelh
Github user joseespinosa
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

idr
GPL v2

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.

https://github.com/kundajelab/idr