About me

Best way to describe myself would be: a software engineer with a lot of hands on experience in mass-spectrometry (liquid and gas chromatography, ion mobility).

Usual course of action - acquire new data, explore it with visualizations, come up with a suitable processing algorithm. In most cases this results in desktop GUI applications for the viz part and CLI programs to perform batch data processing.

• Prefer writing code in Java or C#, with occasional forays into C++.
• Contributing to Open Source projects like Apache NetBeans .
• Sharing love through Maven Central.
• Daily drivers: Java, Gradle, Maven, C# (NET Standard 2.0), Git, SQL
• Occasional usage: R, Python, Nodejs, React, Hugo, Gatsby and much more

Some project links:

• BatMass (Java, NetBeans Platform) - Mass spectrometry data visualization and processing.
• MSFTBX (Java, gRPC, JNA) - Java library for unified mass-spec data access: mzML, mzXML, pepXML, protXML, mzId, mzIdentML, etc. Available through Maven Central.
• FragPipe (Java Swing, JNA) - Pipelined complete LC/MS proteomic analysis with a graphical interface. Peptide/protein search, validation, FDR estimation, quantitation, PTM analysis, spectral library building etc.
• MSFragger (Java) - Ultra-fast proteomics search engine for Closed and Open searches.
• IMTBX+Grppr (C#, WinForms, Java) - A suite of tools for extracting signals from Ion Mobility (IM) data (IM-MS, LC-IM-MS) and performing isotopic envelopes detection.
• DIA-Umpire - Data Independent Acquisition (DIA) data processing tool that doesn’t require a spectral library (Java).