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GeezerVison is showing github.com โ€” BioGeek - Overview

@BioGeek BioGeek Follow
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@BioGeek
BioGeek
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๐Ÿงฌ
Just another Genome hacker,

Jeroen Van Goey BioGeek

๐Ÿงฌ
Just another Genome hacker,
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Staff Research engineer at @instadeepai โ€“ Machine Learning for personalized cancer vaccines, de novo peptide sequencing and signal peptides.
215 followers ยท 116 following
  • @instadeepai
  • Cape Town, South Africa
  • 17:24 (UTC +02:00)
  • http://jeroen.vangoey.be
  • https://orcid.org/0000-0003-4480-5567
  • @jeroen.vangoey.be
  • in/jeroenvangoey
  • @BioGeek

Achievements

Achievement: Pair Extraordinairex4Achievement: YOLOAchievement: Pull Sharkx3Achievement: QuickdrawAchievement: Arctic Code Vault Contributor

Achievements

Achievement: Pair Extraordinairex4Achievement: YOLOAchievement: Pull Sharkx3Achievement: QuickdrawAchievement: Arctic Code Vault Contributor
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BioGeek/README.md

Hi there ๐Ÿ‘‹

I'm Jeroen Van Goey, a Staff Research Engineer and BioAI Lead at InstaDeep, based in Cape Town. I build generative models for biology and take them from research to production.

  • ๐Ÿ”ญ Working on de novo peptide sequencing (InstaNovo) and proteomics foundation models (InstaNovo-FM)
  • ๐Ÿงฌ Published in Nature Machine Intelligence (InstaNovo) and Nature Communications (InstaNovo-P)
  • ๐Ÿ“š Maintain Awesome De Novo Peptide Sequencing, an interactive map of the field
  • ๐ŸŒฑ Learning high-throughput reinforcement learning in JAX, and squeezing a modern ML stack onto an end-of-life Jetson Nano
  • ๐Ÿ’ฌ Ask me about scientific ML, proteomics, edge ML, or leading BioAI teams
  • โšก Fun fact: I turned my grandfather's chess studies into playable boards, and shoot photography on the side
  • ๐Ÿ“ซ More at jeroen.vangoey.be

Website LinkedIn Google Scholar Bluesky

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  1. instadeepai/InstaNovo instadeepai/InstaNovo Public

    De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments

    Python 136 31

  2. instadeepai/InstaNovo-FM instadeepai/InstaNovo-FM Public

    InstaNovo-FM: a self-supervised foundation model for proteomics

    Python 14 3

  3. instadeepai/InstaNovo-P instadeepai/InstaNovo-P Public

    InstaNovo-P: A De Novo Peptide Sequencing Model for Phosphoproteomics

    Python 5

  4. instadeepai/winnow instadeepai/winnow Public

    Confidence control and FDR estimation for de novo peptide sequencing

    Python 12 1

  5. awesome_de_novo_peptide_sequencing awesome_de_novo_peptide_sequencing Public

    Python

  6. hackathon_IndabaX_2025_mlip hackathon_IndabaX_2025_mlip Public

    Data and starter notebook for the Machine Learning Interatomic Potential (MLIP) hackathon

    Jupyter Notebook 5 4

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