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@gyorilab

Gyori Lab for Computational Biomedicine

Accelerating discovery in biomedicine using AI @ Northeastern University

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  1. emmaa emmaa Public

    Ecosystem of Machine-maintained Models with Automated Analysis

    Python 11 11

  2. indra_db indra_db Public

    A Database-based knowledge back-end built on and for INDRA. The INDRA Database is a service that can be set up by any user with their own content and knowledge access. Our implementation of the dat…

    Python 16 11

  3. gilda gilda Public

    Grounding of biomedical named entities with contextual disambiguation

    Python 43 13

  4. protmapper protmapper Public

    Map amino acid sites of post-translational modifications from models or data to reference positions.

    Python 7 7

  5. indra_world indra_world Public

    INDRA World Modelers services

    Jupyter Notebook 7 5

  6. indra_cogex indra_cogex Public

    INDRA Context Graph Extension

    Jupyter Notebook 10 12

Repositories

Showing 10 of 52 repositories
  • gyorilab.github.io Public

    Gyori Lab website

    gyorilab/gyorilab.github.io’s past year of commit activity
    HTML 3 3 0 0 Updated Mar 14, 2025
  • indra_cogex Public

    INDRA Context Graph Extension

    gyorilab/indra_cogex’s past year of commit activity
    Jupyter Notebook 10 BSD-2-Clause 12 17 8 Updated Mar 13, 2025
  • mira Public

    MIRA: machine-assisted modeling of dynamical systems

    gyorilab/mira’s past year of commit activity
    Jupyter Notebook 12 BSD-2-Clause 7 18 4 Updated Mar 12, 2025
  • indra_db Public

    A Database-based knowledge back-end built on and for INDRA. The INDRA Database is a service that can be set up by any user with their own content and knowledge access. Our implementation of the database is the back-end to many of our projects, providing a vast and detailed knowledge base derived from many resources.

    gyorilab/indra_db’s past year of commit activity
    Python 16 GPL-3.0 11 8 3 Updated Mar 5, 2025
  • indra_reading Public

    Tools used for large scale reading, mostly using AWS Batch.

    gyorilab/indra_reading’s past year of commit activity
    Python 0 6 0 1 Updated Mar 4, 2025
  • indra_network_search Public

    REST API for querying the network of biochemical mechanisms in the INDRA DB.

    gyorilab/indra_network_search’s past year of commit activity
    Python 0 BSD-2-Clause 2 15 1 Updated Mar 3, 2025
  • ui_util Public

    This repo creates general utilities for our user interfaces.

    gyorilab/ui_util’s past year of commit activity
    Python 0 4 0 2 Updated Feb 28, 2025
  • indra_metascience Public

    Analyzing scientific trends based on INDRA-assembled knowledge

    gyorilab/indra_metascience’s past year of commit activity
    Python 0 BSD-2-Clause 1 0 0 Updated Feb 26, 2025
  • indra_curation Public

    A utility build around the HTML assembler to enable easy curation of custom sets of INDRA Statements.

    gyorilab/indra_curation’s past year of commit activity
    JavaScript 0 BSD-2-Clause 4 0 0 Updated Feb 21, 2025
  • worm_lifespan Public

    Studying genes affecting lifespan in C. elegans using knowledge assembly and networks

    gyorilab/worm_lifespan’s past year of commit activity
    0 BSD-2-Clause 0 0 0 Updated Feb 17, 2025
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