PathVisio

PathVisio is a useful tool for biologists and other professionals who need to analyze molecular interactions by using biological pathways. The program allows you to create the logical structure of the pathway and visualize the information from a dataset.
The application features a simple interface that allows you to quickly create the pathway by adding data nodes, cells and other graphical elements. The drawing tools are easy to use and can be accessed from the Objects panel.
After adding an element you can change its size, position and font in order to emphasize its importance in the diagram. The right side panel also allows you to search for pathways in order to easily load them in the interface.
Besides simple graphical objects, your diagram might include proteins, metabolites and other data nodes. Each one can be linked with other elements and personalized by adding annotations or references.
PathVisio can also help you analyze data by using the pathway structure and database identifiers for the biologic entities. It understands the connections and allows you to import experiment data in order to visualize it and extract statistics.
The pathway model can easily be exported in order to be used for presentations or shared with other users. The program supports both popular formats, such as PDF, PNG or SVG and specialized pathways formats as GenMAPP or GPML.
Additionally, the program’s functions can be extended by installing plug-ins which can developed by the community. The included plug-in manager provides access to various plugins for dealing with other file formats or adding interface elements.
If you need to visualize experiment data, PathVisio is a reliable tool. The extensive online documentation explains the basic concepts and usage which makes it a good choice for all experience levels.