v1.2.0 - Pre-Release For Review

SUMMARY

Spark is a discovery tool intended to help you explore the patterns in your genome-wide data. While genome browsers offer a powerful means to integrate diverse data types, their view is inherently limited to individual genomic loci and it can be difficult to obtain a global overview of the predominant data patterns. To address this need, we developed Spark, which enables interactive data clustering and visualization and serves as a complement to genome browsing.

The tool clusters data from a set of user defined regions. Through its Java-based visualization interface, a user can then interactively explore and refine the contents of each cluster and drill down to inspect the individual members. The software also integrates with popular web resources, for example, the UCSC genome browser and the DAVID gene ontology resource.

SOFTWARE

Spark is a Java application available for Download.

It can also be accessed through the Genboree Workbench at www.genboree.org. To access Spark, login into Genboree, click on “Workbench” and from the “Epigenome” Menu, select “Cluster by Spark” under the “Analyze Signals” option.

TUTORIAL VIDEOS

There are two tutorial videos available:
1. An overview of Spark’s core functionality: Spark Tutorial
2. An overview of the Genboree Workbench interface to Spark: Genboree-Spark Interface Tutorial

USER GUIDE

A detailed User Guide is available here.

MAILING LIST

Please post your comments and questions to the Spark Google Group: http://groups.google.com/group/spark_users/