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@biopragmatics

Biopragmatics Stack

Software supporting biomedical semantics and pragmatics

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  1. bioregistry bioregistry Public

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

    Python 99 41

  2. biomappings biomappings Public

    🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.

    Jupyter Notebook 45 13

  3. bioversions bioversions Public

    🪝 What's the latest version for each database?

    Python 22 5

  4. biolookup biolookup Public

    🔍 The Biolookup Service retrieves metadata and ontological information about biomedical entities.

    Python 3

Repositories

Showing 10 of 18 repositories
  • bioregistry Public

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

    Python 99 MIT 41 102 (3 issues need help) 7 Updated Mar 4, 2024
  • curies Public

    🐸 Idiomatic conversion between URIs and compact URIs (CURIEs) in Python

    Python 17 MIT 5 6 3 Updated Feb 28, 2024
  • pyobo Public

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

    Python 50 MIT 11 35 3 Updated Feb 21, 2024
  • biomappings Public

    🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.

    Jupyter Notebook 45 CC0-1.0 13 17 7 Updated Feb 21, 2024
  • biolexica Public

    📘 Generate and apply coherent biomedical lexical indices for NER and NEN

    Jupyter Notebook 1 MIT 0 5 1 Updated Feb 20, 2024
  • bioversions Public

    🪝 What's the latest version for each database?

    Python 22 MIT 5 11 3 Updated Feb 15, 2024
  • debio Public

    🥮 Decentralized Biomedical Ontology

    Python 0 MIT 0 1 0 Updated Feb 15, 2024
  • curies.rs Public

    🦀 Idiomatic conversion between URIs and compact URIs (CURIEs) in Rust

    Rust 4 MIT 1 1 0 Updated Feb 12, 2024
  • semra Public

    🛣️ Semantic Mapping Reasoning Assembler (SeMRA): tooling for semantic mappings

    Python 1 1 3 1 Updated Feb 6, 2024
  • biopragmatics.github.io Public

    GitHub site for the Biopragmatics Stack

    0 0 0 0 Updated Jan 31, 2024

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