Software

 

All of the code pertinent to our active and past projects can be found on our GitHub page

We develop and maintain several program products that address a variety of issues arising when working with genomic and transcriptomic data. 

This is the list of software or databases which is being developed or maintained in our group: 

  1. GeneQuery - a webserver for transcriptome-based hypothesis generation. Developed by Alexander Predeus under supervision of Maxim Artyomov. Currently Ivan Arbuzov works under supervision of Alexander Predeus on making a more efficient web-server and better statistical algorithms for enrichment evaluation. 
  2. ClusDec - an R package, developed by  Konstantin Zaytsev, Pavel Fedotov and Alexander Predeus under supervision of Maxim Artyomov. Currently is an active project of Konstantin Zaytsev.
  3. BroadPeaks - re-implementation of SICER algorithm for broad peak calling in appropriate ChIP-Seq experiments.