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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

Pinned

  1. EscherConverter 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 14 10

  2. ModelPolisher ModelPolisher Public

    ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

    Java 22 6

  3. SBMLme SBMLme Public

    Encoding ME models in SBML

    Java 7 2

  4. refinegems refinegems Public

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

    PLpgSQL 8

Repositories

Showing 10 of 33 repositories
  • refinegems Public

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

    PLpgSQL 8 MIT 0 12 0 Updated Feb 21, 2024
  • SBOannotator Public

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

    Python 5 GPL-3.0 0 1 0 Updated Jan 16, 2024
  • pymCADRE Public

    pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.

    Jupyter Notebook 11 GPL-3.0 5 1 0 Updated Dec 27, 2023
  • C_striatum_wetlab Public

    This repository contains data generated in the wet lab need for characterization and validation of strain specific GEMs

    Jupyter Notebook 1 0 0 0 Updated Nov 2, 2023
  • C_striatum_GEMs Public

    This repository contains all changes made to the strain specific models of Corynebacterium striatum.

    HTML 1 MIT 0 0 0 Updated Nov 2, 2023
  • ModelEditingTools Public

    A collection of tools for working with models in SBML format

    Java 3 MIT 0 0 0 Updated Aug 29, 2023
  • 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 20 LGPL-3.0 12 15 (3 issues need help) 0 Updated Jul 7, 2023
  • KEGGtranslator Public

    A Java-based software for visualizing and translating the KEGG PATHWAY database. Conversion of KGML files into BioPAX, SBML, GraphML, GML, and various other formats.

    Java 16 LGPL-3.0 10 7 0 Updated Jun 26, 2023
  • 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 14 MIT 10 19 0 Updated Feb 2, 2023
  • SBSCL-demo Public

    A demo repository with example code for using the Systems Biology Simulation Core Library (SBSCL).

    Java 0 MIT 0 1 0 Updated Jan 16, 2023