Alexey Gurevich
Research Group Leader at Helmholtz Institute for Pharmaceutical Research Saarland
Saarbrücken, Saarland, Germany
Summary
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Rockstar🎓
Top SchoolAlexey Gurevich is a Research Group Leader and Junior Professor based in Saarbrücken with 15 years of experience at the intersection of bioinformatics, algorithmic biology, and software engineering. He holds a PhD in Bioinformatics and has a strong track record of leading human-microbe systems research while bridging academic leadership and hands-on tool development. Alexey is an experienced back-end developer and DevOps contributor to high-profile open-source projects—most notably improving build systems and core functionality of the widely used SPAdes genome assembler and maintaining Bioconda packaging for tools like Quast. His work spans low-level build/debug improvements, integration of external aligners, simulation scripts for structural variants, and robust packaging and CI refinements that make bioinformatics software easier to install and reproduce. Comfortable moving between production engineering and research, he combines deep algorithmic expertise with practical system-level problem solving. Colleagues describe him as someone who reliably converts complex computational biology problems into deployable, well-tested software.
14 years of coding experience
12 years of employment as a software developer
Doctor of Philosophy - PhD, Biomathematics, Bioinformatics, and Computational Biology, Doctor of Philosophy - PhD, Biomathematics, Bioinformatics, and Computational Biology at Saint Petersburg State UniversityMaster of Science (MS), summa cum laude, Math and Information Technology, Master of Science (MS), summa cum laude, Math and Information Technology at Saint Petersburg Academic UniversityLyceum "Physical-Technical High School"Bachelor of Science (BS), summa cum laude, Information Technology, Bachelor of Science (BS), summa cum laude, Information Technology at Saint Petersburg State Polytechnical University
English, Russian
Stackoverflow
1reputation
31reached
0answers
1question
Github Skills (20)
package-management10
conda10
makefile10
build-automation10
bioinformatics10
c-language9
biom9
algorithm9
algorithms9
bash9
cprogramming-language9
shell8
sh8
script8
scripting8
Programming languages (7)
Github contributions (5)
ablab/spades
Jun 2011 - Sep 2018
SPAdes Genome Assembler
Role in this project:
Back-end Developer
Back-end DeveloperContributions:532 commits, 3 comments, 1 issue in 7 years 4 months
Contributions summary:Alexey primarily contributed to the build process and core functionality of the SPAdes Genome Assembler. Their commits involved modifying makefiles and build scripts to address debugging issues and integrate external tools, such as a BWA alignment module, highlighting their work in low-level system interactions. The user also implemented new scripts for contig analysis and structural variant simulation.
bioinformaticsgenomeassemblerspadesgenome-assembly
bioconda/bioconda-recipes
Oct 2017 - Oct 2021
Conda recipes for the bioconda channel.
Role in this project:DevOps Engineer & Package Maintainer
DevOps Engineer & Package MaintainerContributions:8 commits, 10 PRs, 3 pushes in 4 years
Contributions summary:Alexey primarily contributes to the bioconda-recipes repository by updating and maintaining the Quast recipe. This involves fixing installation issues, adapting the build process, and modifying test configurations for the software. The commits also include updating the recipe to incorporate more sophisticated installation options, including the integration of GAGE and other dependencies. The user demonstrates a strong understanding of package management and continuous integration processes.
recipescondabiocondabioinformaticspackage-management
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