The TissueAnalyzer plugin for PathVisio provides a simple three step workflow for users to load, analyze and visualize tissue-specific pathway activity.
PathVisioRPC is an XML-RPC interface for PathVisio. It allows users to use PathVisio functionality directly in their favourite analytical environment,
License: Apache License
Basic GeneOntology plugin to create GO pathways visualizing all genes annotated with a specific term or its one of its subterms. The terms are structured hierarchically. All genes are annotated and data can be automatically visualized on them.
This plugin implements a standard Gene Set Enrichment Analysis method that can be used to identify over represented pathways in the data set.
It also allows to load gene sets from MSigDB (http://www.broadinstitute.org/gsea/).