Fidel Ramirez
Senior Principal Scientist at Boehringer Ingelheim
Biberach an der Riß, Baden-Württemberg, Germany
Summary
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Rockstar🎓
Top SchoolFidel Ramirez is a Senior Principal Scientist and computational biologist with 12+ years translating NGS and single-cell data into actionable biological insights at institutions like Max Planck and Boehringer Ingelheim. He combines deep hands-on bioinformatics (HiCExplorer, deepTools contributions) and software development experience—contributing to widely used open-source tools for genome data processing and GO analysis—with team leadership and mentorship across multidisciplinary projects. Skilled at turning biological questions into robust computational workflows, he advises on experimental design, builds reproducible analysis pipelines, and champions visualization for single-cell interpretation. Notably, his code and publications (deepTools) have become community standards in NGS analysis, reflecting a rare blend of research impact and production-grade tooling.
12 years of coding experience
21 years of employment as a software developer
Biologist, Biology, Biologist, Biology at Universidad Nacional de ColombiaDoctor of Philosophy (PhD), Bioinformatics, Doctor of Philosophy (PhD), Bioinformatics at Max Planck Insitute for Informatics
Spanish, English, German
Github Skills (15)
file-processing10
testing10
file-handling10
bioinformatics10
biom10
file-access10
python10
fileio10
statsmodels10
data-processing10
matplotlib10
data-analysis10
python-multiprocessing8
multi-process8
multiprocessing8
Programming languages (10)
Github contributions (5)
deeptools/deepTools
Jul 2013 - Nov 2017
Tools to process and analyze deep sequencing data.
Role in this project:
Back-end Developer
Back-end DeveloperContributions:6 releases, 815 commits, 112 PRs in 4 years 5 months
Contributions summary:Fidel contributed to the deeptools/deeptools repository by merging updates to a core Python script and modifying the code to center reads. The updates involved changes to the script's functionality related to processing data, specifically adjusting read fragment handling, and fixing issues with bed files. These modifications indicate a focus on improving the functionality and accuracy of the data processing capabilities of the tool.
chip-seqpythonpipelinesequencing-datangs
deeptools/pyGenomeTracks
Oct 2017 - Mar 2019
python module to plot beautiful and highly customizable genome browser tracks
Role in this project:Full-stack Developer
Full-stack DeveloperContributions:4 releases, 117 commits, 29 PRs in 1 year 4 months
Contributions summary:Fidel primarily contributed to the pygenometracks project by improving code formatting and style, using pep8 cleanup. They also changed absolute paths to relative paths for a test file, improving the testing. Furthermore, they added test data for plotting links and added support for the tabix file format. The user also added new track examples to make the code more user-friendly.
genomepythongenome-browserbrowserplot
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