T-KDE is a software tool that can be used to locate constitutive protein binding sites using ChIP-seq peak centers from multiple cell lines or genomic “hot spots” where several different proteins bind and, conversely, cell-specific sites bound by a given protein. T-KDE combines a binary range tree algorithm, a non-parametric kernel density estimator, and a mode finding algorithm.

The Matlab source code, examples, a shell script and a readme file can be downloaded below. Note that the current version of the package has not been tested on a 32-bit machine.


Download the software for T-KDE (15MB) .


Leping Li, Ph.D.
Principal Investigator
Tel 984-287-3836
Fax 919-541-4311
[email protected]