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@draeger-lab

Dräger Lab

Computational Systems Biology Lab within the Institute for Bioinformatics and Medical Informatics (IBMI) of the University of Tübingen

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  1. EscherConverter Public

    A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.

    Java 15 10

  2. ModelPolisher Public

    ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

    Java 23 7

  3. SBMLme Public

    Encoding ME models in SBML

    Java 7 2

  4. refinegems Public

    refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).

    Jupyter Notebook 11 1

Repositories

Showing 10 of 38 repositories
  • SPECIMEN Public

    Automated pipeline for strain-specific metabolic modeling based on a high-quality template model.

    Jupyter Notebook 5 GPL-3.0 1 15 (6 issues need help) 0 Updated Feb 25, 2025
  • refinegems Public

    refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).

    Jupyter Notebook 11 MIT 1 21 (3 issues need help) 0 Updated Feb 25, 2025
  • SBSCL Public

    The Systems Biology Simulation Core Library (SBSCL) provides an efficient and exhaustive Java implementation of methods to interpret the content of models encoded in the Systems Biology Markup Language (SBML) and its numerical solution.

    HTML 21 LGPL-3.0 12 15 (3 issues need help) 0 Updated Feb 18, 2025
  • ModelPolisher Public

    ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

    Java 23 7 14 0 Updated Jan 28, 2025
  • TFpredict Public

    Identification and structural characterization of transcription factors based on supervised machine learning

    Java 7 GPL-3.0 3 1 (1 issue needs help) 0 Updated Jan 24, 2025
  • BOFdat Public Forked from jclachance/BOFdat

    Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data

    Jupyter Notebook 0 6 0 0 Updated Dec 3, 2024
  • MPClient Public

    Client library for the MPServer

    Python 2 0 0 0 Updated Nov 29, 2024
  • MPServer Public

    Server Implementation for the Model Polisher

    Clojure 0 0 0 0 Updated Nov 29, 2024
  • MassChargeCuration Public

    Python module to automatically curate the mass and charge assignments for metabolites in a metabolic model.

    Jupyter Notebook 4 1 0 0 Updated Oct 10, 2024
  • SBOannotator Public

    SBOannotator: A Python tool for the automated assignment of Systems Biology Onotology terms

    Python 8 GPL-3.0 1 1 0 Updated Jul 15, 2024