PathVisio
| PathVisio | |
|---|---|
| File:PathVisio logo.png | |
| Initial release | 2008 |
| Stable release | 3.3.0
/ January 28, 2018 |
| Repository |
|
| Written in | Java |
| Engine | |
| Operating system | Any (Java-based) |
| Type | Pathways editing, analysis, visualization |
| License | Apache 2.0 |
| Website | www |
PathVisio is a free open-source pathway analysis and drawing software. It allows drawing, editing, and analyzing biological pathways. Visualization of ones experimental data on the pathways for finding relevant pathways that are over-represented in your data set is possible.[1][2][3]
PathVisio provides a basic set of features for pathway drawing, analysis and visualization.[4][5] Additional features are available as plugins.
History
[edit | edit source]PathVisio was created primarily at Maastricht University and Gladstone Institutes.[6] The software is developed in Java and it's also used as part of the WikiPathways framework as an applet.[7] Starting from version 3.0 (released in 2012) plugins are OSGi compliant and a plugin directory Archived 2015-03-11 at the Wayback Machine, describing them, was developed. In 2015 version 3.2 was released. This was the first signed version with a certificate issued by a certification authority. Many of the running issues introduced by java 1.7 and 1.8 with the new security rules were solved. Since 2013 a javascript version (PVJS) is being developed to replace the applet. From 2015 it also allows small edits and in the future it will be a full editor.
Features
[edit | edit source]- Pathway drawing and annotation[8]
- Pathway analysis[9]
- Integration with WikiPathways for easy editing/publishing
- Integration with Cytoscape[10]
- Integration with other programming languages via PathVisioRPC[11]
References
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