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@KarrLab

Karr whole-cell modeling lab

Developing whole-cell computational models to predict and engineer biology.

Popular repositories

  1. de_sim Public

    Python-based object-oriented discrete-event simulation tool for complex, data-driven modeling

    Python 17 4

  2. intro_to_wc_modeling Public

    Whole-cell modeling tutorials

    Python 16 5

  3. gdoc_down Public

    Command line programs to save Google documents to text and LaTeX files

    Python 15 2

  4. latex-grant Public

    LaTeX classes for formatting scientific documents, including US federal grant proposals.

    TeX 14 5

  5. datanator Public

    Toolkit for discovering and aggregating data for whole-cell modeling

    Python 12 4

  6. conv_opt Public

    Python package for linear and quadratic programming

    Python 9 2

Repositories

  • wc_rules Public

    Rule-based modeling for whole-cell models.

    Python 7 MIT 3 1 0 Updated May 20, 2022
  • wc_utils Public

    Utilities for whole-cell modeling such as logging, plotting, managing git repos, random number generation and others

    Python 1 MIT 1 5 0 Updated Apr 29, 2022
  • datanator Public

    Toolkit for discovering and aggregating data for whole-cell modeling

    Python 12 MIT 4 7 0 Updated Jan 19, 2022
  • karr_lab_website Public

    Code for the Karr Lab website

    HTML 0 MIT 0 1 1 Updated Nov 24, 2021
  • Cell_model Public

    FBA Cell Modeling Project

    Python 0 2 0 0 Updated Aug 13, 2021
  • wc_kb Public

    Tools for building databases of experimental data for constructing whole-cell models

    Python 3 MIT 5 12 0 Updated Jul 8, 2021
  • wc_model_gen Public

    Framework for systematically and scalably designing whole-cell models from large datasets

    Python 5 MIT 2 9 0 Updated Jul 6, 2021
  • obj_tables Public

    Tools for creating and reusing high-quality spreadsheets

    Python 7 MIT 2 25 0 Updated Jun 14, 2021
  • wc_kb_gen Public

    Framework for constructing knowledge bases for whole-cell models

    Python 0 MIT 0 4 0 Updated Jun 13, 2021
  • wc_env_manager Public

    Tools for managing computing environments for WC modeling

    Python 0 MIT 0 7 0 Updated Jun 13, 2021
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