Description:
PyFBA 2.62
A python implementation of flux balance analysis to model microbial
metabolism
About PyFBA
PyFBA is a Python flux-balance-analysis package that allows you to build
models from genomes, gapfill models, and run flux-balance-analysis on
that model. The aim of PyFBA is to provide an extensible, python-based
platform for FBA work.
PyFBA is being developed by Daniel Cuevas, Taylor O’Connell, and Rob
Edwards in Rob’s bioinformatics group at Flinders University,
together with help from Janaka Edirisinghe, Chris Henry, Ross Overbeek
and others at Argonne National Labs.
Installing PyFBA
We recommend that you install PyFBA using conda:
conda create -n pyfba -c bioconda pyfba
You can also install PyFBA from PyPi using pip and you will need
Python 3 or greater, and you need to install the GNU GLPK and a
Python wrapper for that program, pyGLPK available from GitHub.
Our installation page has detailed instructions on installing PyFBA and
getting everything running.
Getting Started with PyFBA
Once you have installed GLPK, PyGLPK, and PyFBA, you will most likely
want to build a model from a genome, gap fill that model, and test it
for growth on different media. We have detailed instructions that walk
you through the step-by-step procedures that you need to use to run flux
balance analysis on your own genome.
Copyright and License
PyFBA is copyright Daniel Cuevas, Taylor O’Connell, and Rob Edwards, and
is released under the MIT license.
License
For personal and professional use. You cannot resell or redistribute these repositories in their original state.
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