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CexoR

Strand specific peak-pair calling in ChIP-exo replicates. The cumulative Skellam distribution function (package 'skellam') is used to detect significant normalised count differences of opposed sign at each DNA strand (peak-pairs). Irreproducible discovery rate for overlapping peak-pairs across biological replicates is estimated using the package 'idr'.

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2 user reviews

2 user reviews

Divyesh Patel's avatar image

Divyesh Patel

Hi,

I have run CexoR in ChIP_exo replicates. It reports me error message : "Error in while (to.run) { : missing value where TRUE/FALSE needed".

I have submitted following commands:
R library(CexoR)

R genome chipexo

Xiaou L.'s avatar image

Xiaou L.

Nice package

CexoR forum

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CexoR classification

CexoR specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
R
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
Artistic License version 2.0, GNU General Public License version 2.0
Stability:
Stable

CexoR distribution

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CexoR support

Documentation

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