Metadata-Version: 2.1
Name: multitfa
Version: 0.1.0
Summary: Multivariate thermodynamics-based metabolic flux analysis in Python.
Home-page: https://github.com/biosustain/multitfa
Author: Vishnuvardhan Mahamkali
Author-email: v.mahamkali@uq.edu.au
License: Apache-2.0
Download-URL: https://pypi.org/project/multitfa/
Project-URL: Source Code, https://github.com/biosustain/multitfa
Project-URL: Documentation, https://multitfa.readthedocs.io
Project-URL: Bug Tracker, https://github.com/biosustain/multitfa/issues
Description: ========
        multiTFA
        ========
        
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           :alt: Current PyPI Version
        
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           :alt: Supported Python Versions
        
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           :target: https://www.apache.org/licenses/LICENSE-2.0
           :alt: Apache Software License Version 2.0
        
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           :target: .github/CODE_OF_CONDUCT.md
           :alt: Code of Conduct
        
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           :target: https://github.com/biosustain/multitfa/workflows/CI-CD
           :alt: GitHub Actions
        
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           :target: https://codecov.io/gh/biosustain/multitfa
           :alt: Codecov
        
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           :alt: Code Style Black
        
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           :target: https://multitfa.readthedocs.io/en/latest/?badge=latest
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        .. summary-start
        
        We present multiTFA, a multivariate thermodynamics-based metabolic flux analysis
        package for Python. The framework takes advantage of the reactions' Gibbs free
        energy covariance matrix to tightly constrain metabolic models using
        thermodynamic constraints. It represents an improvement over a previous
        thermodynamic metabolic flux analysis (tMFA) method described in [1]_.
        
        This implementation requires a COBRA model as input, as well as additional
        compartment conditions and metabolite concentrations. It allows user to perform
        various thermodynamic analyses on COBRA models, such as thermodynamic metabolic
        flux analysis, variability analysis, or flux sampling.  Please see below for
        further details.
        
        .. [1] Henry, Christopher S., Linda J. Broadbelt, and Vassily Hatzimanikatis.
            "Thermodynamics-Based Metabolic Flux Analysis."
            *Biophysical Journal* 92, no. 5 (March 1, 2007): 1792–1805.
            https://doi.org/10.1529/biophysj.106.093138.
        
        Install
        =======
        
        It's as simple as:
        
        .. code-block:: console
        
            pip install multitfa
        
        We highly recommend the installation of a commercial mathematical optimization
        solver, like `GUROBI <https://www.gurobi.com/>`_ or `CPLEX
        <https://www.ibm.com/analytics/cplex-optimizer>`_.
        
        Usage
        =====
        
        Please take a look at the Python scripts and Jupyter notebooks in the
        ``examples`` directory.
        
        Copyright
        =========
        
        * Copyright © 2018, Novo Nordisk Foundation Center for Biosustainability.
        * Free software distributed under the `Apache Software License 2.0
          <https://www.apache.org/licenses/LICENSE-2.0>`_.
        
        .. summary-end
        
Keywords: thermodynamics,multivariate,flux analysis,metabolic,TMFA,TFA,multiTFA
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Natural Language :: English
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3.6
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3 :: Only
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.6
Description-Content-Type: text/x-rst
Provides-Extra: development
