The BioPAX validator Journal Article
| Authors: | Rodchenkov, I.; Demir, E.; Sander, C.; Bader, G. D. |
| Article Title: | The BioPAX validator |
| Abstract: | Summary: BioPAX is a community-developed standard language for biological pathway data. A key functionality required for efficient BioPAX data exchange is validation-detecting errors and inconsistencies in BioPAX documents. The BioPAX Validator is a commandline tool, Java library and online web service for BioPAX that performs 4100 classes of consistency checks. Availability and implementation: The validator recognizes common syntactic errors and semantic inconsistencies and reports them in a customizable human readable format. It can also automatically fix some errors and normalize BioPAX data. Since its release, the validator has become a critical tool for the pathway informatics community, detecting thousands of errors and helping substantially increase the conformity and uniformity of BioPAX-formatted data. The BioPAX Validator is open source and released under LGPL v3 license. All sources, binaries and documentation can be found at sf.net/p/ biopax, and the latest stable version of the web application is available at biopax.org/validator. Contact: igor.rodchenkov@utoronto.ca or gary.bader@utoronto.ca. © The Author 2013. Published by Oxford University Press. |
| Journal Title: | Bioinformatics |
| Volume: | 29 |
| Issue: | 20 |
| ISSN: | 1367-4803 |
| Publisher: | Oxford University Press |
| Date Published: | 2013-10-15 |
| Start Page: | 2659 |
| End Page: | 2660 |
| Language: | English |
| DOI: | 10.1093/bioinformatics/btt452 |
| PROVIDER: | scopus |
| PMCID: | PMC3789551 |
| PUBMED: | 23918249 |
| DOI/URL: | |
| Notes: | --- - "Export Date: 1 November 2013" - "CODEN: BOINF" - "Source: Scopus" |
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