Simon Heumos
Senior Bioinformatics Scientist
Tübingen, Baden-Württemberg, Germany
Summary
👤
Senior🎓
Top SchoolSimon Heumos is a Senior Bioinformatics Scientist with 11 years of experience combining NGS analysis, multiomics integration, and scalable workflow engineering to accelerate translational cancer research. Completing a PhD at the Quantitative Biology Center, he built high-performance tools and pipelines—authoring nf-core/pangenome and co-developing ODGI and the PG-SGD layout algorithm—to cut human pangenome processing from weeks to days. At QBiC he led integrative analyses across RNA-Seq, proteomics, RPPA and FACS data to identify candidate biomarkers, secured industry collaborations and grant funding, and ran community-focused hackathons. An active open-source contributor and Nextflow module developer, he has practical DevOps and backend experience improving CI/CD, containerization, and reporting (notably contributing odgi parsing to MultiQC). Now at Illumina, he seeks roles where C++ tooling, workflow automation, and multiomics analytics meet clinical impact.
11 years of coding experience
1 year of employment as a software developer
Master of Science (M.Sc.), Bioinformatik, Master of Science (M.Sc.), Bioinformatik at Eberhard-Karls-Universität Tübingen
Github Skills (22)
data-visualizations10
go-modules10
docker10
python10
dsl10
singularity10
data-visualisation10
kernel-module10
dockers10
nextflow10
mu10
bioinformatics10
jsmodules10
data-visualization10
reporting-services10
Programming languages (20)
Github contributions (5)
nf-core/modules
Jan 2022 - Jan 2023
Repository to host tool-specific module files for the Nextflow DSL2 community!
Role in this project:
Backend Developer & DevOps Engineer
Backend Developer & DevOps EngineerContributions:75 reviews, 16 commits, 75 PRs in 1 year
Contributions summary:Simon significantly contributed to the `nf-core/modules` repository, primarily by developing and integrating new modules, focusing on tools within the bioinformatics domain. Their work involved substantial code changes within Nextflow configuration files and module definitions, including adjustments to containerization and conda environments. The user also demonstrated expertise in testing, creating and modifying tests to ensure module functionality and correctness. They also played a role in the CI/CD setup and incorporating tools.
nf-corehostnextflow-dsl2nextflowdsl2
MultiQC/MultiQC
Dec 2020 - Jul 2021
Aggregate results from bioinformatics analyses across many samples into a single report.
Role in this project:Backend Developer
Backend DeveloperContributions:9 reviews, 27 commits, 37 comments in 7 months
Contributions summary:Simon primarily contributed to the `odgi` module within the `multiqc/multiqc` repository, focusing on the analysis and visualization of bioinformatics data. Their commits demonstrate a focus on debugging and refining the parsing of ODGI stats files. Specifically, the user modified code related to sample name extraction and data compression, and also corrected code errors. These changes reflect a focus on backend logic and data processing within the context of the multiqc reporting framework.
multiqcpythonpypianalysesbioconda
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