LICENSE
MANIFEST.in
README.md
README.rst
setup.cfg
setup.py
docs/Makefile
docs/conf.py
docs/index.rst
docs/make.bat
docs/mewpy-arch.png
docs/mewpy.io.rst
docs/mewpy.model.data.rst
docs/mewpy.model.rst
docs/mewpy.optimization.inspyred.rst
docs/mewpy.optimization.jmetal.rst
docs/mewpy.optimization.rst
docs/mewpy.problems.rst
docs/mewpy.regulation.rst
docs/mewpy.rst
docs/mewpy.simulation.rst
docs/mewpy.unittests.rst
docs/mewpy.utils.rst
docs/mewpy.visualization.rst
docs/modules.rst
docs/build/html/_images/mewpy-arch.png
docs/build/html/_static/file.png
docs/build/html/_static/minus.png
docs/build/html/_static/plus.png
examples/cbml-nsgaii.ipynb
examples/gecko-spea2.ipynb
examples/gecko.ipynb
examples/geneOU.ipynb
examples/models/ec-protein-gene.csv
examples/models/yeast-protein-gene.csv
examples/models/autopacmen/iJO1366_2019_06_25_GECKO.xml
examples/models/autopacmen/iJO1366_sMOMENT_2019_06_25.xml
examples/models/autopacmen/iJO1366_sMOMENT_2019_06_25_GECKO_ANALOGON.xml
examples/models/autopacmen/iJO1366_sMOMENT_2019_06_25_STANDARD_EXCHANGE_SCENARIO.xml
examples/models/ec/iJO1366SL.xml
examples/models/ec/iML1515.xml
examples/models/ec/nontargets#RK#iJO1366SL#[lim-aerobic#glucose].txt
examples/models/ec/nontargets#ROU#iJO1366SL#[lim-aerobic#glucose].txt
examples/models/kinetic/CoreEcoli_fixed.xml
examples/models/kinetic/Jahan2016_chemostat_fixed.xml
examples/models/kinetic/Jahan2016_chemostat_fixed_july_mMs.xml
examples/models/kinetic/chassagnole2002.xml
examples/models/kinetic/chassagnole2002_mMs.xml
examples/models/kinetic/kadir2010_fixed_mMs.xml
examples/models/kinetic/mMs_28.xml
examples/models/kinetic/peskov2012_mMs.xml
examples/models/kinetic/toy.xml
examples/models/optram/TFnames.csv
examples/models/optram/mgene.csv
examples/models/optram/regnet.csv
examples/models/optram/yeast-essential.xlsx
examples/models/optram/yeast_7.6-optram.xml
examples/models/regulation/SampleNet.xml
examples/models/regulation/SampleRegNet.csv
examples/models/regulation/core_TRN.csv
examples/models/regulation/core_TRN_rfba_aliases.csv
examples/models/regulation/core_TRN_srfba_aliases.csv
examples/models/regulation/core_TRN_v2.csv
examples/models/regulation/e_coli_core.xml
examples/models/regulation/iJR904.xml
examples/models/regulation/iJR904_srfba.xml
examples/models/regulation/imc1010_env_cond.xlsx
examples/models/regulation/imc1010_rfba_aliases.csv
examples/models/regulation/imc1010_srfba_aliases.csv
examples/models/regulation/imc1010_v2.csv
examples/models/regulation/imc1010_v3.csv
examples/models/regulation/imc1010_v4.csv
examples/models/regulation/imc1010_v5.csv
examples/models/regulation/imc1010_v6.csv
examples/models/yeast/iMM904.xml.gz
examples/models/yeast/iMM904SL_v6.xml
examples/models/yeast/nontargets#RK#iMM904SL_v6#[lim-aerobic#glucose].txt
examples/models/yeast/nontargets#ROU#iMM904SL_v6#[lim-aerobic#glucose].txt
examples/models/yeast/yeast_7.6.xml
src/mewpy/__init__.py
src/mewpy.egg-info/PKG-INFO
src/mewpy.egg-info/SOURCES.txt
src/mewpy.egg-info/dependency_links.txt
src/mewpy.egg-info/not-zip-safe
src/mewpy.egg-info/requires.txt
src/mewpy.egg-info/top_level.txt
src/mewpy/io/__init__.py
src/mewpy/io/bnet.py
src/mewpy/io/sbml.py
src/mewpy/io/sbml_qual.py
src/mewpy/io/tabular.py
src/mewpy/model/__init__.py
src/mewpy/model/gecko.py
src/mewpy/model/kinetic.py
src/mewpy/model/smoment.py
src/mewpy/model/data/__init__.py
src/mewpy/model/data/ecYeastGEM_multi-pool.xml
src/mewpy/model/data/ecYeastGEM_single-pool.xml
src/mewpy/model/data/proteins.txt
src/mewpy/optimization/__init__.py
src/mewpy/optimization/ea.py
src/mewpy/optimization/evaluation.py
src/mewpy/optimization/inspyred/__init__.py
src/mewpy/optimization/inspyred/ea.py
src/mewpy/optimization/inspyred/observers.py
src/mewpy/optimization/inspyred/operators.py
src/mewpy/optimization/inspyred/problem.py
src/mewpy/optimization/jmetal/__init__.py
src/mewpy/optimization/jmetal/ea.py
src/mewpy/optimization/jmetal/observers.py
src/mewpy/optimization/jmetal/operators.py
src/mewpy/optimization/jmetal/problem.py
src/mewpy/problems/__init__.py
src/mewpy/problems/gecko.py
src/mewpy/problems/genes.py
src/mewpy/problems/kinetic.py
src/mewpy/problems/problem.py
src/mewpy/problems/reactions.py
src/mewpy/regulation/RFBA.py
src/mewpy/regulation/SRFBA.py
src/mewpy/regulation/__init__.py
src/mewpy/regulation/integrated_model.py
src/mewpy/regulation/optorf.py
src/mewpy/regulation/optram.py
src/mewpy/regulation/regulatory_interaction.py
src/mewpy/regulation/regulatory_model.py
src/mewpy/regulation/regulatory_variable.py
src/mewpy/regulation/variable.py
src/mewpy/simulation/__init__.py
src/mewpy/simulation/cobra.py
src/mewpy/simulation/kinetic.py
src/mewpy/simulation/reframed.py
src/mewpy/simulation/simulation.py
src/mewpy/unittests/__init__.py
src/mewpy/unittests/cobra_geckoopt.py
src/mewpy/unittests/eacomparison.py
src/mewpy/unittests/geckoopt.py
src/mewpy/unittests/geckosimulation.py
src/mewpy/unittests/geneopt.py
src/mewpy/unittests/geneoulevel.py
src/mewpy/unittests/gpr_eval.py
src/mewpy/unittests/kinetic.py
src/mewpy/unittests/load.py
src/mewpy/unittests/opt.py
src/mewpy/unittests/optorf.py
src/mewpy/unittests/optram.py
src/mewpy/unittests/rfba.py
src/mewpy/unittests/smoment.py
src/mewpy/unittests/srfba.py
src/mewpy/utils/__init__.py
src/mewpy/utils/constants.py
src/mewpy/utils/crossmodel.py
src/mewpy/utils/ode.py
src/mewpy/utils/parsing.py
src/mewpy/utils/process.py
src/mewpy/utils/utilities.py
src/mewpy/visualization/__init__.py
src/mewpy/visualization/envelope.py
src/mewpy/visualization/escher.py
src/mewpy/visualization/plot.py