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:
- 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.
- 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.
- BroadPeaks - re-implementation of SICER algorithm for broad peak calling in appropriate ChIP-Seq experiments.