Welcome to the GenMAPP Wiki
GenMAPP-CS is open-source software for pathway visualization and analysis, bringing the intuitive and easy-to-use features of GenMAPP to the powerful and flexible Cytoscape platform. More about the project and specific aims
GenMAPP-CS
Release Cycle
- Pre-alpha - current feature set planning and implementation
- Alpha 0.1 - Sept 2009 - plugin bundle of fundamental GenMAPP-CS core
- Alpha 0.2 - Dec 2010 - workflow bundle ready for internal testing
- Beta 0.1 - Aug 2011 - working bundle with growing set of critical features and evolving UI design
- Production Release 1.0? - Sept 2011 - polished version with full feature set; EOL for GenMAPP 2.x
Testing Workflows
- Expression data - Visualize and analyze microarray data on pathways
- Over-representation analysis - GO-Elite over-representation analysis of expression data
- Time course data - Visualizing multiple time points of data simultaneously as vertical stripes on nodes
- Combined omics data - Visualizing and analyzing proteomics and transcriptomics data together
- GEO data import? - Importing data from GEO coming soon...
- -Omics data? - Visualizing proteomics and metabolomics data coupled with chemViz and structureViz coming soon...
Testing protocols
- Installer testing - Instructions for testing installers
- Milestone testing? - Comprehensive testing protocol
- GO-Elite Benchmarking
GSoC
- Google_Summer_of_Code: Links to Ideas Page and Student Projects
Cytoscape
- Home Page: Main web site
- Cytoscape wiki: Development wiki
- Cytoscape-Discuss Google Group: Discussion/Development list
- How_to_setup_Eclipse: Step-by-step instructions for how to use Eclipse for Cytoscape Plugin development
WikiPathways
- PathVisio wiki: Development wiki and trac system for Wiki Pathways and Path Visio
- BridgeDb wiki: Development wiki and trac system for BridgeDb
- WikiPathways-Discuss Google Group: Discussion list
- WikiPathways-Dev Google Group: Development list
Pathway Curation Project
GenMAPP 2.x Links
- Home Page: Main site for original GenMAPP
- GenMAPP Google Group: Discussion list
- Featured MAPPs and Databases
- Species-Specific Gene Index
- Species-Specific Pathway Index
- GenMAPP_2.1_Feature_List: List of features to be included in GenMAPP 2.1
- HTTP Access
- Sourceforge
- attachment:eDatabase_20070220.doc
- attachment:GO_Tables.doc
