Organization Acknowledgements
Senior Personnel Postdocs/Grad Students All Personnel by Institution
Collaborations
AToL

The CIPRES Software Effort

A key deliverable of the CIPRES project is freely-available, platform-independent software that can be installed on a laptop or desktop computer or run on a large supercomputer. To achieve this deliverable, the CIPRES software team, led by Mark Holder is actively developing software tools to serve practicing systematists (particularly those with large data-sets), computational systematists who implement algorithms, and algorithm designers. The basis for the enabling technology is a flexible, efficient library that allows for cooperation/communication between diverse phylogenetic modules. The libraries will make it possible for developers within the community to easily link their software to the software of other developers.

Biologists can access the CIPRES software services through multiple front-ends. Modules that allow the widely-used Mesquite software package to access CIPRES services will be released in Fall of 2006. The visual programming environment Kepler allows users to construct workflow's by arranging and linking icons which represent distinct computational tasks. In addition to Mesquite and Kepler, the CIPRES software team has produced a simple Java application that uses CIPRES services to implement the recursive-iterative-DCM3 methods of Usman, Warnow, et al. All CIPRES software is still in the testing/pre-release stage.

Package 1: The CIPRES libraries

Download the CIPRES libraries for MAC, Linux, and Windows
Download Here

Package 2: CIPRES-KEPLER

Macintosh users can download a (pre-release, testing) version CIPRES in Kepler workflow:
(A licensed version of PAUP is required)
Instructions for Installation are pdf and doc.
Download Here
If you download the software, fill out this questionnaire, and enter in a drawing to win an iPOD
Windows users can download the CIPRES in Kepler workflow:
(A licensed version of PAUP is required)
Instructions for Installation are here: pdf and doc.
Download Here
If you download the software, fill out this questionnaire, and enter in a drawing to win an iPOD

NEED MORE INFORMATION?

The software development effort is a collaboration between developers at SDSC (Terri Liebowitz, Lucie Chan, Zhijie Guan) and systematists (Mark Holder, Paul Lewis, David Swofford, Wayne Maddison, David Maddison, Peter Midford, and Rutger Vos).

CIPRES software links: