# Software Projects Primary projects and research outcomes > **Dmitry Bagaev, PhD** — Senior Software Engineer & Scientist, based in Eindhoven, the Netherlands. > [bvdmitri@gmail.com](mailto:bvdmitri@gmail.com) · [GitHub](https://github.com/bvdmitri) · [LinkedIn](https://linkedin.com/in/bvdmitri) · [Google Scholar](https://scholar.google.com/citations?user=zjfAwAEAAAAJ&hl=en) > > This page is one section of my auto-generated personal site. See the [overview](/index.md) for a full summary and links to the other sections. ## RxInfer.jl *Reactive Message-Passing Bayesian Inference Framework* **Organization:** [Initially Personal Project, now under ReactiveBayes Organization](https://rxinfer.com/) A comprehensive Julia package for automatic Bayesian inference on factor graphs with reactive message passing. Consists of several open-source packages and has its own organization on GitHub. This project is a core component of my PhD dissertation. - Main website: https://rxinfer.com/ - Documentation: https://docs.rxinfer.com/stable/ - Examples: https://examples.rxinfer.com/ - Core repository: https://github.com/reactivebayes/RxInfer.jl - ReactiveMP.jl: https://github.com/reactivebayes/ReactiveMP.jl - Rocket.jl: https://github.com/reactivebayes/Rocket.jl - GraphPPL.jl: https://github.com/reactivebayes/GraphPPL.jl - PhD dissertation: https://research.tue.nl/en/publications/reactive-probabilistic-programming-for-scalable-bayesian-inferenc **Skills:** Julia, Bayesian Inference, Reactive Programming, Factor Graphs, Message Passing, Open Source, Collaboration, Resource management, Software Architecture --- ## Rocket.jl *Reactive Programming Implementation* **Organization:** [Initially Personal Project, now under ReactiveBayes Organization](https://github.com/reactivebayes/Rocket.jl) An efficient reactive programming implementation in Julia language. The most starred library for reactive programming in Julia, providing high-performance reactive streams and operators. - Repository: https://github.com/reactivebayes/Rocket.jl - Most starred reactive programming library in Julia ecosystem - High-performance reactive streams and operators - Comprehensive documentation and examples **Skills:** Julia, Reactive Programming, Stream Processing, Performance Optimization, Open Source, Software Architecture --- ## VDJdb *T-cell Receptor Database Browser* **Organization:** [VDJdb Project](https://vdjdb.com/) A web application for browsing and querying database of T-cell receptor (TCR) sequences with known antigen specificities. Provides an intuitive interface for database navigation and can query immune repertoire sequencing samples against the database. - Web application: https://vdjdb.com/ - Publication in Nature: https://www.nature.com/articles/s41592-022-01578-0 - Intuitive interface for TCR database navigation - Thousands of users per month (which is really lot for a scientific resource!) - Query immune repertoire sequencing samples - Generate sample-level summary of antigen specificities - Entirely open-sourced https://github.com/antigenomics/vdjdb-web **Skills:** Web Development, Database Design, Bioinformatics, UI/UX, Python, JavaScript, Angular, Software Architecture --- ## VDJviz *Immune Repertoire Visualization Tool* **Organization:** [VDJviz Project](https://vdjviz.cdr3.net/) A versatile immune repertoire web-based graphical user interface application that allows browsing and analyzing immune repertoire sequencing (RepSeq) data with comprehensive visualization capabilities. - Web application: https://vdjviz.cdr3.net/ - Comprehensive immune repertoire data analysis - Advanced visualization capabilities - User-friendly graphical interface - Entirely open-sourced https://github.com/antigenomics/vdjviz **Skills:** Web Development, Data Visualization, Bioinformatics, UI/UX, JavaScript, Angular, Databases --- ## Other *A list of small libraries that I maintain on my GitHub account* **Organization:** [GitHub](https://github.com/bvdmitri) Sometimes I just have an idea and want to build some simple package that I typically share with the others on GitHub or collaborate with other people. - A simple library to connect and control Robot Dog Bittle by Petoi: https://github.com/bvdmitri/PetoiBittle.jl - A package that serves as an umbrella, defining, exporting, and re-exporting methods essential for Bayesian statistics: https://github.com/ReactiveBayes/BayesBase.jl - A package that provides a collection of exponential family distributions and offers specialized functionality tailored to this class of distributions: https://github.com/ReactiveBayes/ExponentialFamily.jl - This package serves as a lightweight extension of Julia's Base.Fix1 and Base.Fix2 functionalities: https://github.com/bvdmitri/FixedArguments.jl - A package for automatic tests revising for Julia based on Revise.jl: https://github.com/bvdmitri/ReviseTests.jl - The TinyHugeNumbers package exports tiny and huge objects to represent tiny and huge numbers: https://github.com/ReactiveBayes/TinyHugeNumbers.jl - A package that is designed to correct specific properties of a matrix using predefined strategies: https://github.com/ReactiveBayes/MatrixCorrectionTools.jl --- # Open Source Contributions Community contributions and ecosystem participation ## Julia Programming Language *Core Language & Ecosystem Contributions* **Organization:** [JuliaLang Organization](https://github.com/JuliaLang/julia) Active contributions to the Julia programming language core and its ecosystem, including bug fixes, feature implementations, and community support. - Core repository: https://github.com/JuliaLang/julia - Pull requests: https://github.com/JuliaLang/julia/pulls?q=is%3Apr+author%3Abvdmitri+is%3Aclosed - Issue contributions: https://github.com/JuliaLang/julia/issues?q=is%3Aissue+author%3Abvdmitri+ - Bug fixes and feature implementations - Community support and documentation - Complete re-style of the JuliaCon conference landing page (which is still being used today): https://github.com/bvdmitri/www.juliacon.org **Skills:** Julia, Open Source, Bug Fixes, Feature Development, Community Support --- ## vdjtools *T-cell & B-cell Repertoire Analysis* **Organization:** [vdjtools Project](https://github.com/mikessh/vdjtools) Contributions to a comprehensive analysis framework for T-cell and B-cell repertoire sequencing data, supporting advanced immunological research. - Repository: https://github.com/mikessh/vdjtools - Comprehensive analysis framework for immune repertoires - Support for T-cell and B-cell sequencing data - Advanced immunological research tools **Skills:** Bioinformatics, Python, Data Analysis, Immunology, Open Source --- ## Angular Framework *Google Angular Ecosystem* **Organization:** [Angular Team](https://github.com/angular/angular) Contributions to the Google Angular ecosystem, including issue reports, feature requests, and community engagement. - Repository: https://github.com/angular/angular - Issue contributions: https://github.com/angular/angular/issues?q=author%3Abvdmitri+ - Feature requests and bug reports - Community engagement and support **Skills:** Angular, TypeScript, Web Development, Open Source, Community Support --- ## Neovim *Modern Vim Editor* **Organization:** [Neovim Project](https://github.com/neovim/neovim) Contributions to the Neovim ecosystem, including issue reports, feature suggestions, and community support for the modern Vim editor. - Repository: https://github.com/neovim/neovim - Issue contributions: https://github.com/neovim/neovim/issues?q=is%3Aissue+author%3Abvdmitri+is%3Aclosed - Plugins contributions: https://github.com/fnune/recall.nvim/pulls?q=is%3Apr+is%3Aclosed+author%3Abvdmitri, https://github.com/nvim-neotest/neotest/pulls?q=is%3Apr+author%3Abvdmitri+is%3Aclosed and others - Feature suggestions and bug reports - Community support and documentation **Skills:** Neovim, Vim Script, Editor Development, Open Source, Community Support --- ## INMOST *High-Performance Numerical Library* **Organization:** [INMOST Development](https://github.com/INMOST-DEV/INMOST) Contributions to INMOST, a high-performance numerical library for large-scale scientific computing and reservoir simulation. - Repository: https://github.com/INMOST-DEV/INMOST - Commit history: https://github.com/INMOST-DEV/INMOST/commits/master/?author=bvdmitri - High-performance numerical computing - Large-scale scientific simulations - Reservoir simulation capabilities - Internship at ExxonMobil in Texas HQ **Skills:** C++, Numerical Computing, HPC, Scientific Computing, Open Source, Internship, International Collaboration --- --- ## Other pages - **Overview:** / — or /index.md for markdown format - **Experience:** /experience — or /experience.md for markdown format - **Education:** /education — or /education.md for markdown format - **Publications:** /publications — or /publications.md for markdown format - **Presentations:** /presentations — or /presentations.md for markdown format - **Hobbies:** /hobbies — or /hobbies.md for markdown format