Paper Info
Title
PathVisio-Validator: a rule-based validation plugin for graphical pathway notations.
Abstract
Purpose: The PathVisio-Validator plugin aims to simplify the task of producing biological pathway diagrams that follow graphical standardized notations, such as Molecular Interaction Maps or the Systems Biology Graphical Notation. This plugin assists in the creation of pathway diagrams by ensuring correct usage of a notation, and thereby reducing ambiguity when diagrams are shared among biologists. Rulesets, needed in the validation process, can be generated for any graphical notation that a developer desires, using either Schematron or Groovy. The plugin also provides support for filtering validation results, validating on a subset of rules, and distinguishing errors and warnings. Availability: The PathVisio-Validator plugin works with versions of PathVisio 2.0.11 and later on Windows, Mac OS X and Linux. The plugin along with the instructions, example rulesets for Groovy and Schematron, and Java source code can be downloaded at http://pathvisio.org/wiki/PathVisioValidatorHelp. The software is developed under the open-source Apache 2.0 License and is freely available for both commercial and academic use.
Year
DOI
Venue
2012
10.1093/bioinformatics/btr694
BIOINFORMATICS
Keywords
Field
DocType
systems biology,publication,computer graphics
Data mining,Notation,Computer science,Schematron,Software,Systems Biology Graphical Notation,OS X,Plug-in,Bioinformatics,Computer graphics,Validator
Journal
Volume
Issue
ISSN
28
6
1367-4803
Citations 
PageRank 
References 
3
0.48
6
Authors
5
Name
Order
Citations
PageRank
Kumar Chandan130.48
Martijn van Iersel233216.66
Mirit I. Aladjem3504.65
Kurt W Kohn4283.07
Augustin Luna5577.87