Metadata-Version: 1.1
Name: biopantograph
Version: 0.3.0
Summary: Pantograph is a toolbox for the reconstruction, curation and validation of metabolic models.
Home-page: http://pathtastic.gforge.inria.fr
Author: Nicolas Loira
Author-email: nloira@gmail.com
License: GPLv2
Description: 
        Pantograph
        ----------
        
        Pantograph is a toolbox for the reconstruction, curation and validation of metabolic models. This is the unstable, development branch of Pantograph. For the stable 0.1 line and documentation, and for many of the scripts not included here, please check the website cited below.
        
        Usage:
        
                $ pantograph -x scaffold.xml -i inparanoid.data -m orthomcl.data -s org1 -t org2 -o out.xml -l out.log
        
        Where *scaffold.txt* is an existing, well-curated SBML metabolic model, used as a template for the reconstruction; *inparanoid.data* is the output from Inparanoid, comparing the genes from the template and the reconstructed model; *orthomcl.data* is the output from OrthoMCL, where *org1* is the template model and *org2* is the reconstructed model; *out.xml* is the SBML reconstructed model and *out.log* is the reconstruction log. You can reconstruct a model using any of the two orthology methods (Inparanoid or OrthoMCL), although better results are obtained using both.
        
        Pantograph has been tested under Linux and OS X, but not under Windows.
        
        
        For more information, see our website: http://pathtastic.gforge.inria.fr
        
        If you use Pantograph for your own reconstructions, please cite:
        	Nicolas Loira, Anna Zhukova and David J Sherman. *Pantograph: A template-based method for genome-scale metabolic model reconstruction.* J Bioinform Comput Biol, 13(2): 1550006, 2015.
        	DOI: 10.1142/S0219720015500067
        
        For any question, please contact:
        Nicolas Loira
        nloira@gmail.com
        
        
        
Keywords: pantograph metabolic model reconstruction
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Environment :: Console
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: GNU General Public License v2 (GPLv2)
Classifier: Programming Language :: Python :: 2.7
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
