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@gyorilab

Gyori Lab for Computational Biomedicine

Accelerating discovery in biomedicine using AI @ Northeastern University

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  1. indra indra Public

    INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly…

    Python 199 71

  2. indra_cogex indra_cogex Public

    INDRA Context Graph Extension

    Jupyter Notebook 12 13

  3. emmaa emmaa Public

    Ecosystem of Machine-maintained Models with Automated Analysis

    Python 11 11

  4. 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 17 11

  5. gilda gilda Public

    Grounding of biomedical named entities with contextual disambiguation

    Python 44 14

  6. indra_world indra_world Public

    INDRA World Modelers services

    Jupyter Notebook 9 5

Repositories

Showing 10 of 61 repositories
  • openacme Public

    Implementing ACME decision tables on ICD-10 codes

    gyorilab/openacme’s past year of commit activity
    Python 0 BSD-2-Clause 0 0 0 Updated Oct 28, 2025
  • mira Public

    MIRA: machine-assisted modeling of dynamical systems

    gyorilab/mira’s past year of commit activity
    Jupyter Notebook 13 BSD-2-Clause 8 18 4 Updated Oct 28, 2025
  • adeft Public

    Tool for disambiguating acronyms and abbreviations in text for NLP applications

    gyorilab/adeft’s past year of commit activity
    Python 22 BSD-2-Clause 10 1 0 Updated Oct 28, 2025
  • indra_bert Public
    gyorilab/indra_bert’s past year of commit activity
    Python 0 BSD-2-Clause 0 0 0 Updated Oct 28, 2025
  • dglink Public

    Linking data portals to external knowledge

    gyorilab/dglink’s past year of commit activity
    Python 0 BSD-2-Clause 1 0 0 Updated Oct 24, 2025
  • indra_cogex Public

    INDRA Context Graph Extension

    gyorilab/indra_cogex’s past year of commit activity
    Jupyter Notebook 12 BSD-2-Clause 13 20 8 Updated Oct 23, 2025
  • indra Public

    INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

    gyorilab/indra’s past year of commit activity
    Python 199 BSD-2-Clause 71 33 9 Updated Oct 23, 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 18 0 Updated Oct 21, 2025
  • depmap_analysis Public Forked from johnbachman/depmap_analysis
    gyorilab/depmap_analysis’s past year of commit activity
    Jupyter Notebook 1 8 0 0 Updated Oct 20, 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 17 GPL-3.0 11 7 3 Updated Oct 16, 2025
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