Skip to main content
. Author manuscript; available in PMC: 2017 Sep 27.
Published in final edited form as: Methods Cell Biol. 2012;110:19–56. doi: 10.1016/B978-0-12-388403-9.00002-3

Fig. 2.

Fig. 2

Gaggle visualization and analysis framework. The Gaggle Boss, shown in the center, coordinates communication among the various member tools (geese), removing the need for file import/export and format translation. Also shown is a subset of geese, including two – Cytoscape and Sungear – that are used as part of the analysis discussed in Biological Insights section and Methods section. Each of the geese can both send to and receive from the Boss, which permits an iterative workflow: for example, a small set of genes from Sungear can be sent to Cytoscape, analyzed to find its 1-hop network, then sent back to Sungear for further analysis. In addition, several geese provide extensible means to connect to a larger set of tools: Cytoscape and Sungear via plug-in frameworks, FireGoose via its connections to other websites, and R via its downloadable packages. (For color version of this figure, the reader is referred to the web version of this book.)