Thomas Cokelaer
Ingenieur Bioinformaticien
Paris, Ile-de-France
Summary
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Rockstar🎓
Top SchoolThomas Cokelaer is a seasoned bioinformatician and scientific software developer with 17 years of experience building data analysis and machine learning tools in Python for translational genomics, systems biology and proteomics. Based at Institut Pasteur after roles at EBI, the Wellcome Sanger Institute and INRIA, he combines deep algorithmic training from a PhD in astronomy with hands-on software engineering across Python and C++ to deliver full-cycle, reproducible research software (notably gdsctools for drug–genome associations). He has a track record of turning complex experimental datasets into production-ready analysis pipelines and libraries, with strengths in network analysis, optimisation and mass‑spec/perturbation data. Colleagues value his ability to bridge academic research and robust open-source tooling, informed by early scientific software work on LIGO and plant modelling projects.
17 years of coding experience
11 years of employment as a software developer
degree; B.Sc; degree, Physics; Mathematics and Computer Science, degree; B.Sc; degree, Physics; Mathematics and Computer Science at Calais UniversityPhD; M.Sc, Science; Physics Astronomy; Astronomy, PhD; M.Sc, Science; Physics Astronomy; Astronomy at University of NicePhD, Astronomy, PhD, Astronomy at Université Côte d'Azurmaitrise, physique, maitrise, physique at Université du Littoral Côte d'Opale
French, English
Stackoverflow
1,049reputation
246kreached
22answers
1question
plot
top-5%
python
top-5%
Github Skills (194)
ecology10
snakemake10
taxonomy10
sphinx-doc10
package-management10
python10
seq10
forge10
coverage10
uniprot10
genome-assembly10
profiling10
prediction10
genomics10
computational-biology10
Programming languages (12)
Github contributions (5)
sequana/resources
Mar 2017 - Dec 2023
Contributions:133 pushes, 1 branch in 6 years 10 months
sequana/versionix
Jun 2023 - Dec 2024
Versionix is a lightweight tool designed to display the version of standalone software directly on the screen, handling various versioning formats.
Contributions:9 releases, 2 reviews, 32 PRs in 1 year 5 months
parsingversioning
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