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1. cobradb cobradb Public

   COBRAdb loads genome-scale metabolic models and genome annotations into a relational database. It already powers BiGG Models, and it is available under the MIT license.

   Python 20 13

2. ssbio ssbio Public

   A Python framework for structural systems biology

   Python 109 30

3. cobrame cobrame Public

   A COBRApy extension for genome-scale models of metabolism and expression (ME-models)

   Python 39 16

4. ecolime ecolime Public

   Data and tools necessary to construct iJL1678b-ME, a genome-scale model of E. coli K-12 MG1655 metabolism and expression

   Python 5 12

5. bigg_models bigg_models Public

   The BiGG Models website server

   Python 91 20

6. precise-db precise-db Public

   A high-fidelity E. coli RNA-seq compendium

   Jupyter Notebook 33 19