STEM: species tree estimation using maximum likelihood for gene trees under coalescence
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Open Access
- 10 February 2009
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 25 (7), 971-973
- https://doi.org/10.1093/bioinformatics/btp079
Abstract
Summary: STEM is a software package written in the C language to obtain maximum likelihood (ML) estimates for phylogenetic species trees given a sample of gene trees under the coalescent model. It includes options to compute the ML species tree, search the space of all species trees for the k trees of highest likelihood and compute ML branch lengths for a user-input species tree. Availability: The STEM package, including source code, is freely available at http://www.stat.osu.edu/~lkubatko/software/STEM/. Contact:lkubatko@stat.osu.edu Supplementary information: Supplementary data are available at Bioinformatics online.Keywords
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