David R. Maddison, Oregon State University
Wayne P. Maddison, University of British Columbia

Other contributors
Kipling W. Will, University of California at Berkeley (design and troubleshooting for TNT interactions for version 1.1 of Zephyr)

Zephyr is a Mesquite package that provides tools for interacting with phylogeny inference programs including RAxML-NG, RAxML, IQ-TREE, PAUP*, GARLI, and TNT. From within Mesquite one can ask Mesquite to send a matrix to the external program, have Mesquite monitor the run as it is going (including, on occasion, seeing the latest tree), and then harvest the results back into Mesquite automatically once the analysis run is done. In addition, Zephyr allows you to conduct a Swofford-Olsen-Waddell-Hillis (SOWH) test from within Mesquite.

For an overview of Zephyr, see the Introduction.

More information is available by clicking on the links at the left.