Thom Griffioen - Bioinformatician

Thom Griffioen

Bioinformatician

Zwolle, Overijssel, Netherlands

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Summary

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Senior

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Top School

Thom Griffioen is a bioinformatician with 11 years of experience specializing in (meta)genomics data analytics and production-ready software for agricultural and environmental research. He has built scalable analysis pipelines and cloud-integrated workflows at organizations including Syngenta, HZPC, and NIOO-KNAW, often bridging wet-lab needs with engineering practices like Databricks and Azure. Thom contributes to Bioconda recipes, demonstrating DevOps chops by maintaining build scripts and fixing complex package builds for widely used bioinformatics tools. His work on soil and rhizosphere microbiomes combines quantitative genomics with data modeling to link plant traits and microbial communities. Trained with an MSc in bioinformatics/biomathematics from Vrije Universiteit Amsterdam and a background in information security, he balances computational rigor with reproducible deployment. Colleagues describe him as the pragmatic engineer who brings production reliability to research pipelines while still getting hands-on with sequencing projects in the field.

11 years of coding experience

4 years of employment as a software developer

Master of Science - MS, Biomathematics, Bioinformatics, and Computational Biology, Master of Science - MS, Biomathematics, Bioinformatics, and Computational Biology at Vrije Universiteit Amsterdam

HAVO-NG diploma, Natuur en Gezondheid, HAVO-NG diploma, Natuur en Gezondheid at CSG Het Streek

Bachelor of Science (BSc), Bio-informatica (Bio-informatics), Bachelor of Science (BSc), Bio-informatica (Bio-informatics) at Hogeschool van Arnhem en Nijmegen

Minor, Information Systems Security, Minor, Information Systems Security at Hogeschool Utrecht

English, Dutch, German

Github Skills (12)

bioinformatics10

conda10

package-management10

build-automation10

bash9

gnu-make8

makefile8

python8

cprogramming-language7

c-language7

docker6

dockers6

Programming languages (8)

TypeScriptShellCJavaScriptNextflowHTMLMarkdownPython

Github contributions (5)

bioconda/bioconda-recipes

Jan 2021 - Nov 2022

Conda recipes for the bioconda channel.

Role in this project:

Back-end Developer & DevOps Engineer

Contributions:4 reviews, 7 commits, 20 PRs in 1 year 9 months

Contributions summary:Thom primarily contributes to the bioconda-recipes repository by updating and maintaining package recipes for bioinformatics software. Their work involves modifying build scripts and configuration files, updating software versions, and integrating patches. They also make changes to the build process, including modifying configure flags and fixing build issues, which suggests a DevOps-oriented role in ensuring the packages build correctly within the Conda environment. The user demonstrates the ability to work on different recipes like pantools and blast.

recipescondabiocondabioinformaticspackage-management

ebete/ebete.github.io

Mar 2015 - Nov 2017

Contributions:5 pushes, 2 branches in 2 years 8 months

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