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Tufts Bioinformatics and Computational Biology Research Group

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  1. Walker Walker Public

    Python implementation of Kohler et al.'s random walk with restart

    Python 29 14

  2. RegDiffusion RegDiffusion Public

    Diffusion model for gene regulatory network inference.

    Python 15 4

  3. io io Public

    A set of packages to read and write common file formats produced by computational biology software.

    Go 10 1

  4. medford medford Public

    Human-readible metadata file format to consolidate research information such that it can be stored, updated, and submitted to databases without introducing a huge time investment overhead.

    Python 9 5

  5. dazzle dazzle Public

    Python 4

  6. semsimcalc semsimcalc Public

    Semantic similarity calculation package

    Python 3 1

Repositories

Showing 10 of 28 repositories
  • medford Public

    Human-readible metadata file format to consolidate research information such that it can be stored, updated, and submitted to databases without introducing a huge time investment overhead.

    TuftsBCB/medford’s past year of commit activity
    Python 9 MIT 5 4 2 Updated Oct 21, 2024
  • medford-vscode Public

    The VS Code extension that supports the MEDFORD metadata markup language

    TuftsBCB/medford-vscode’s past year of commit activity
    Python 1 MIT 2 0 1 Updated Jun 19, 2024
  • RegDiffusion Public

    Diffusion model for gene regulatory network inference.

    TuftsBCB/RegDiffusion’s past year of commit activity
    Python 15 Apache-2.0 4 4 0 Updated May 23, 2024
  • medford-language-server Public

    A language server, implementing the Language Server Protocol, for the MEDFORD metadata markup language.

    TuftsBCB/medford-language-server’s past year of commit activity
    Python 3 MIT 0 1 0 Updated Sep 23, 2023
  • TuftsBCB/Medford-and-Editor-Support-User-Guide’s past year of commit activity
    TeX 0 0 0 0 Updated Aug 13, 2023
  • dazzle Public
    TuftsBCB/dazzle’s past year of commit activity
    Python 4 MIT 0 0 0 Updated Jun 27, 2023
  • TuftsBCB/MEDFORD-Spec’s past year of commit activity
    TeX 2 0 1 0 Updated Dec 3, 2022
  • MEDFORD-examples Public

    Example MEDFORD metadata files for a variety of datatypes

    TuftsBCB/MEDFORD-examples’s past year of commit activity
    1 MIT 2 2 0 Updated Jun 14, 2022
  • pathway-centrality Public

    A python program that calculates pathway centrality scores for pathway gene sets based on a given ppi networks

    TuftsBCB/pathway-centrality’s past year of commit activity
    Python 0 0 0 0 Updated Sep 16, 2019
  • Walker Public

    Python implementation of Kohler et al.'s random walk with restart

    TuftsBCB/Walker’s past year of commit activity
    Python 29 MIT 14 2 0 Updated Sep 19, 2018

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