Igor Mitrofanov

MiXCR - fast and accurate analysis of T- and B- cell receptor repertoire sequencing data. (Java)

MiXCR allows immunologists to perform very fast and accurate analysis of their specific data. It is the fastest software in the category. It was written in Java.
Main parts were:

• development of the aligning algorithms. The core was seed-and-vote based algorithm, but such algorithms as Needleman–Wunsch (global alignment of 2 string), Smith–Waterman (local alignment – only parts of strings to be aligned) and some of their modifications (adopted scoring system for some specific cases where we knew that only right part of the string should be aligned) were implemented. Such approach of combining multiple different algorithms and their modifications let our software be so fast
• clone assembling algorithm
• report generation
• development of testing suite: fake data generation, set of test on completely random data, etc.

I've been working mostly on aligning and report generation parts. As a side project there we developed web-based report viewer ( screenshots) using Play framework (server-side) and Knockout.Js (front-end) library (though it has not been open-sourced)
Our paper about that software has been published in Nature Methods: doi: 10.1038/nmeth.3364

Research project «Computer-Aided Solvent Selection Framework» (C#)

Lead developer of ICAS (Integrated Computer Aided System) software (C++)

The main project was development and implementation of latest techniques and algorithms for solvent selection in different applications. And as a result of this work we've created new tool for ICAS (Integrated Computer-Aided Systems) – Solvent Selection Framework (SSF). ICAS – set of quite powerful software tools (property prediction, computer-aided molecular design, mathematical modelling) for chemical engineers. Different parts there were written in C++, C#, Fortran and Excel. SSF was written in C#. Main parts were:

• solvent selection and design routines for organic synthesis
• solvent screening and design of solvent mixtures for pharmaceutical applications
• ionic liquids selection and design as solvents

SSF has been deeply integrated into eco-system of ICAS, allowing user to use SSF with already available ICAS tools for property prediction, computer-aided molecular design, modelling and some others ( screenshots).

As a lead developer of ICAS I was responsible for building releases, adding new features by helping other developers, fixing bugs, communicating with industrial companies.

I participated in 5 international and 2 internal annual conferences presenting the Solvent Selection Framework and published one paper in Elsevier Science: read online on researchgate.net