CisGenome Browser- A flexible tool for genomic data visualization

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(These are the major updates only, for all revisions, see HISTORY.txt)

May 30, 2010 - The CisGenome Browser paper is published on Bioinformatics.

February 3, 2010 - A sample session is at http://ABC171.65.102.132ABC:32123/session?name=sample_session (remove ABC from the link).

November 30, 2009 - CisGenome Browser 1.1.0 now supports Windows, Linux and Mac.


CisGenome Browser is an open source, platform independent tool which can work together with any other data analysis program to serve as a flexible component for genomic data visualization. It can also work by itself as a standalone genome browser. By working as a light-weight web server, CisGenome Browser is a convenient tool for data sharing between labs. It has features that are specifically designed for ultra high throughput sequencing data visualization.

CisGenome Browser runs on Windows, Linux and Mac platforms. The use of CisGenome Browser is very easy, and the interface is similar to other genome browsers, such as the UCSC Genome Browser. CisGenome Browser is suitable for visualizing microarray/sequencing/other biological data. It runs locally so that there is no need to upload the user data via internet like adding custom tracks when using UCSC Genome Browser or any other online browsers.

CisGenome Browser is designed to work with any other programs as a visualization component. It is integrated in CisGenome and JETTA. Here is a nice tutorial on CisGenome Browser written by Hongkai Ji..


CisGenome Browser was started in the Wong Lab and is developed and maintained by Hui Jiang.


Jiang, H., Wang, F., Dyer, N.P., Wong, W.H. (2010) CisGenome Browser: A Flexible Tool For Genomic Data Visualization, Bioinformatics, 26 (14). [online]


Anyone can use the source codes, documents or the excutable file of CisGenome Browser free of charge for non-commercial use. For commercial use, please contact the author.


(windows only branch, stable)

1.0.14 binary (Windows)
1.0.14 source (Windows)

(multi-platform branch)

1.1.3 binary (Windows)
1.1.3 binary (Mac 10.6)
1.1.3 binary (Linux)
1.1.3 source (all platforms)