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Achievements

Achievement: Galaxy Brainx2Achievement: Starstruckx2Achievement: Public SponsorAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: QuickdrawAchievement: Pull Sharkx4Achievement: Arctic Code Vault Contributor

Achievements

Achievement: Galaxy Brainx2Achievement: Starstruckx2Achievement: Public SponsorAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: QuickdrawAchievement: Pull Sharkx4Achievement: Arctic Code Vault Contributor

Organizations

@pybel @biocuration @bio2bel @ComPath @gyorilab @pharmacome @pykeen @GuiltyTargets @bel-enrichment @bel-commons @PathwayMerger @neurommsig @labsyspharm @pathwayforte @ratvec @neurommsig-epilepsy @seffnet @hemekg @drugrelink @hybrid-kg @MI2CAST @biopragmatics @cthoyt-teaches-reproducibility @pyobo @CoronaWhy @chemical-roles @y0-causal-inference @mapping-commons @stonkgs

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cthoyt/README.md

Hi there 👋

I work with biological knowledge graphs, machine learning, and artificial intelligence to identify active molecules and to deconvolute their mechanisms of action.

🧰 My Projects

  • 📮 Bioregistry: an integrative registry of biological databases, ontologies, and nomenclatures.
  • 🧬 Biological Expression Language (BEL): a domain specific language for representing molecular biology
  • 🌶️ PyBEL: the computational ecosystem for compiling, querying, and analyzing knowledge graphs encoded in BEL
  • 📛 PyOBO: making ontologies and semantics accessible
  • 🤖 PyKEEN: knowledge graph embedding models for humans

⚖️ My Core Scientific Values

  • ♻️ Reproducibility: code is part of the scientific process. It should be documented and re-usable by anyone.
  • 🔓 Openness: science is best when people can build on each others' work. Sharing data, code, and ideas has benefitted everyone, and is also the responsiblity of a scientist to pay forward.
  • 🎯 Thoroughness: quality is dependent on taking great care throughout all steps

📫 My Interblag

Besides my email and blog (on the left), I'm also in the internet in the following places:

Pinned Loading

  1. biopragmatics/bioregistry Public

    📮 An integrative registry of biological databases, ontologies, and nomenclatures.

    Python 122 54

  2. pykeen/pykeen Public

    🤖 A Python library for learning and evaluating knowledge graph embeddings

    Python 1.8k 195

  3. pybel/pybel Public

    🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)

    Python 133 32

  4. biopragmatics/pyobo Public

    📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

    Python 62 16

2,391 contributions in the last year

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Contribution activity

April 2025

Created 19 commits in 3 repositories
Opened 13 pull requests in 3 repositories
Reviewed 1 pull request in 1 repository
biopragmatics/bioregistry 1 pull request

Created an issue in cthoyt/pybacting that received 3 comments

Find a more neutral home

@egonw it's great you were able to make your first release. Do you have an idea where we can move this repo to reflect that it's not just me mainta…

3 comments
Opened 3 other issues in 2 repositories
  • AOP Wiki
    This contribution was made on Apr 5
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