SATe pipeline

SATe specifications

Information


Unique identifier OMICS_14995
Name SATe
Alternative name Simultaneous Alignment and Tree Estimation
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Input data An existing multiple sequence alignment method
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Version 2.2.7
Stability Stable
Requirements Microsoft Visual C++, Python, Dendropy
Source code URL http://phylo.bio.ku.edu/software/sate/downloads2/src/satesrc-v2.2.7-2013Feb15.tar.gz
Maintained Yes

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Documentation


Maintainer


  • person_outline Randal Linder <>

Publications for Simultaneous Alignment and Tree Estimation

SATe IN pipeline

2015
PMCID: 4832304
PMID: 26337499
DOI: 10.1111/1462-2920.13038

[…] the genbank nucleotide database with accession numbers kf059880‐kf059937. for phylogenetic analysis a 940 bp fragment for each distinct genotype in the study was used to construct a phylogeny using simultaneous alignment and tree estimation (liu et al., 2012)., unless otherwise stated, all p. fluorescens strains were grown at 28°c in lysogenic broth (lb) medium (miller, 1972), and kb medium […]

SATe institution(s)
Department of Computer Sciences, The University of Texas at Austin, Austin, TX, USA; Section of Integrative Biology, School of Biological Sciences, The University of Texas at Austin, Austin, TX, USA; Department of Ecology and Evolutionary Biology, University of Kansas at Lawrence, Lawrence, KS, USA; Department of Computer Science, Calvin College, Grand Rapids, MI, USA; Scientific Computing Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany
SATe funding source(s)
This research was supported by the U.S. NSF under grants DEB 0733029, ITR 0331453, ITR 0121680, EIA 0303609, ATOL-0733029, ATOL-0732920 and IGERT 0114387, the Emmy Noether program by the German Science Foundation (Deutsche Forschungsgemeinschaft), the Guggenheim Foundation and Microsoft Research New England.

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