CBMPy

New release 0.7.15 (May 2017)

Overview

PySCeS CBMPy is a new platform for constraint based modelling and analysis. It has been designed using principles developed in the PySCeS simulation software project: usability, flexibility and accessibility. Its architecture is both extensible and flexible using data structures that are intuitive to the biologist (metabolites, reactions, compartments) while transparently translating these into the underlying mathematical structures used in advanced analysis (LP's, MILP's).

PySCeS CBMPy implements popular analyses such as FBA, FVA, element/charge balancing, network analysis and model editing as well as advanced methods developed specifically for the ecosystem modelling: minimal distance methods, flux minimization and input selection.

To cater for a diverse range of modelling needs PySCeS CBMPy supports user interaction via:

CBMPy fully supports a number of open community standards, SBML Level 3 Core, FBC, Groups as well as OMEX and the creation of COMBINE archives. Models can be read/written in SBML FBC versions 1 and 2 as well as older SBML leve 2 dialects.

Quick/fast install

Anaconda Python (Windows/Linux/Mac (32/64 bit)

This is the primary release channel, together with PyPI and SourceForge.

Linux (Ubuntu)

Windows 64bit

or alternativley one of:

Documentation: reference guide 0.7.15 (pdf)

For more information on the development and use of PySCeS CBMPy feel free to contact me:

Email:
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Downloading PySCeS CBMPy

PySCeS CBMPy Releases
Date Release Downloads
   
Source (Linux/OS X)
Win32
Win64
20170529 0.7.15   zip   exe msi
20170414 0.7.13   zip   exe msi
20150519 0.7.5   zip   exe msi
20150414 0.7.4 gzip zip zip exe msi
20150914 0.7.3 gzip zip exe    msi exe msi
20141202 0.7.0 gzip zip exe    msi exe msi
20140903 0.7.0 (RC2)   zip exe  
PySCeS CBMPy Mariner
Date Release Downloads
   
Source (Linux/OS X)
Win32
Win64
20140903 0.6.7   zip exe exe

This software is under active development, release candidates are also made available and the latest bleeding edge code can be found on the CBMPy SVN repository.

Documentation and related material:

PySCeS CBMPy in action

PySCeS CBMPy is developed by

Brett Olivier      vu_logo nwo_logo

 

PySCeS CBMPy is developed under the GNU GPL version 3 as Open Source software. Disclaimer: this software is under active development and is provided as is. Please read the licence the disclaimer provided with the source code for details.

 

 

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