BioPAXViz: a cytoscape application for the visual exploration of metabolic pathway evolution.
Bioinformatics
; 33(9): 1418-1420, 2017 05 01.
Article
in En
| MEDLINE
| ID: mdl-28453679
ABSTRACT
Summary:
BioPAXViz is a Cytoscape (version 3) application, providing a comprehensive framework for metabolic pathway visualization. Beyond the basic parsing, viewing and browsing roles, the main novel function that BioPAXViz provides is a visual comparative analysis of metabolic pathway topologies across pre-computed pathway phylogenomic profiles given a species phylogeny. Furthermore, BioPAXViz supports the display of hierarchical trees that allow efficient navigation through sets of variants of a single reference pathway. Thus, BioPAXViz can significantly facilitate, and contribute to, the study of metabolic pathway evolution and engineering. Availability and Implementation BioPAXViz has been developed as a Cytoscape app and is available at https//github.com/CGU-CERTH/BioPAX.Viz. The software is distributed under the MIT License and is accompanied by example files and data. Additional documentation is available at the aforementioned GitHub repository. Contact ouzounis@certh.gr.
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Software
/
Evolution, Molecular
/
Computational Biology
/
Metabolic Networks and Pathways
Language:
En
Journal:
Bioinformatics
Journal subject:
INFORMATICA MEDICA
Year:
2017
Document type:
Article
Affiliation country: