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. During his M.S. thesis work was improved by Ivan Arbuzov under supervision of Alexander Predeus.RMAHunter
- a web-based tool to systematically analyze and correct reference minor alleles in variant calling data. The tool was developed by Yury Barbitoff and Igor Bezdvornykh under supervision of Alexander Predeus.LSEA
- a command-line tool for gene set enrichment analysis of GWAS summary statistics. The tool was developed by Anton Shikov and Yury Barbitoff.
SICER 2.0 - re-implementation of SICER algorithm for broad peak calling in appropriate ChIP-Seq experiments which was at different times developed by Yegor Prikaziuk, Dmitrii Krasheninnikov, Igor Bezdvornykh, and Evgenii Bakin under supervision of Alexander Predeus.
We also develop several tools for automation of whole-exome sequencing data analysis and interpretation for the CerbaLab Ltd.