institute for computational biomedicine: OC Cluster

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[ description ]

The OC Cluster analysis program performs cluster analysis on a system given a distance (dis-similarity) or similarity matrix. Although originally designed for comparing protein sequences, because the input to the program is a matrix, it can be used to cluster any data for which pair-wise distances or similarities are available. OC Cluster can perform it analysis using one of three simple clustering methods: single, complete, or means linkage. OC Cluter optionally produces simple PostScript dendrograms. A separate version is available that is packaged as a library of callable C subroutines that can be used from within your own C program.

[ documentation ]

The documentation for OC Cluster is available on-line from the Barton lab web site.

[ availability ]

OC Cluster 2.0 is available on all systems. After you have configured your account to use WMC login scripts, you can use the oc-cluster command on the command line. Examples:

$ oc-cluster dis complete id < test.dis
performs a complete linkage analysis on the distance matrix defined the test.dis file.

News

Jul, 2009; ChIPseeqer, a comprehensive framework for analysis of ChIP-seq data developed in the Elemento lab, is now available for download. [More]
Apr, 2009; The BDVal program developed by the Campagne laboratory for MAQC-II is now available from http://bdval.org. The software supports the development and evaluation of predictive biomarker models from high-throughput data. The web site offers binary and source distributions. [More]
Jan, 2009; Twease now supports searching MEDLINE articles by Author, Journal, and Publication Year. Examples for performing these searches can be found in the updated Twease tutorial. [More]

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Events

Dec 11th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Fabien Campagne; ICB Conference Room - Y.1301
Jan 15th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Lei Shi; ICB Conference Room - Y.1301
Feb 12th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Christopher E. Mason; ICB Conference Room - Y.1301
Mar 12th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Olivier Elemento; ICB Conference Room - Y.1301
Apr 9th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Emre Aksay; ICB Conference Room - Y.1301
May 14th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Jonathan D. Victor; ICB Conference Room - Y.1301
Jun 11th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Harel Weinstein; ICB Conference Room - Y.1301
Jul 9th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Duane Hassane; ICB Conference Room - Y.1301