Simultaneous Alignment and Tree Estimation (SATé)
is a software package for constructing phylogenies and
alignments from sequence data.
It is particularly useful for large datasets (hundreds to thousands
of sequences), where it has been shown to produce more accurate
alignments and trees than other methods.
The algorithmic basis for
SATé is under active research development at UTCS by the Warnow Lab
(especially with PhD student
Siavash Mirarab); the publicly distributed
code is a collaboration with the University of Kansas, under
the direction of
Please see the
Kansas SATé page to download the software.
contains datasets and software corresponding to the
original SATé submission. (The new version,
available through the Kansas website, is both faster and has better accuracy,
and we recommend using it instead.)
K. Liu, S. Raghavan, S. Nelesen, C. R. Linder and T. Warnow.
"Rapid and Accurate Large-Scale Coestimation of Sequence Alignments
and Phylogenetic Trees", Science 324, 1561 (2009)
Liu, K., T.J. Warnow, M.T. Holder, S. Nelesen, J. Yu,
A. Stamatakis, and C.R. Linder.
"SATe-II: Very Fast and Accurate Simultaneous Estimation of Multiple
Sequence Alignments and Phylogenetic Trees",
Systematic Biology, 61(1):90-106, 2011
Full publication list
(some downloadable as PDFs)
We are currently developing SATé for amino-acid
analyses, for very large datasets (with upwards of
10,000 taxa), and for use with metagenomic
data (and next generation sequence data
We welcome research collaborations.
Please contact Tandy Warnow
by email at "tandy" at "cs.utexas.edu".
Copyright © 2009-2010 Computational Phylogenetics Lab |
ACES 3.304 |
University of Texas |
Austin, TX 78712
Site help/questions/feedback/requests: e-mail