Mark T. Holder
Mark T. Holder
Associate Professor of Ecology and Evolutionary Biology, University of Kansas
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DendroPy: a Python library for phylogenetic computing
J Sukumaran, MT Holder
Bioinformatics 26 (12), 1569-1571, 2010
Phylogeny estimation: traditional and Bayesian approaches
M Holder, PO Lewis
Nature reviews genetics 4 (4), 275-284, 2003
BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics
DL Ayres, A Darling, DJ Zwickl, P Beerli, MT Holder, PO Lewis, ...
Systematic biology 61 (1), 170-173, 2012
SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees
K Liu, TJ Warnow, MT Holder, SM Nelesen, J Yu, AP Stamatakis, ...
Systematic biology 61 (1), 90, 2012
Polytomies and Bayesian phylogenetic inference
PO Lewis, MT Holder, KE Holsinger
Systematic biology 54 (2), 241-253, 2005
Protistan microbial observatory in the Cariaco Basin, Caribbean. I. Pyrosequencing vs Sanger insights into species richness
V Edgcomb, W Orsi, J Bunge, S Jeon, R Christen, C Leslin, M Holder, ...
The ISME journal 5 (8), 1344-1356, 2011
The posterior and the prior in Bayesian phylogenetics
ME Alfaro, MT Holder
Annual Review of Ecology, Evolution, and Systematics 37, 2006
Difficulties in detecting hybridization
MT Holder, JA Anderson, AK Holloway
Systematic Biology 50 (6), 978-982, 2001
The interface of protein structure, protein biophysics, and molecular evolution
DA Liberles, SA Teichmann, I Bahar, U Bastolla, J Bloom, ...
Protein Science 21 (6), 769-785, 2012
Detection of multiple paternity in the Kemp's ridley sea turtle with limited sampling
K Kichler, MT Holder, SK Davis, R Marquez-M, DW Owens
Molecular Ecology 8 (5), 819-830, 1999
Explaining species distribution patterns through hierarchical modeling
AE Gelfand, JA Silander, S Wu, A Latimer, PO Lewis, AG Rebelo, ...
Bayesian Analysis 1 (1), 41-92, 2006
Genetic algorithms and parallel processing in maximum-likelihood phylogeny inference
MJ Brauer, MT Holder, LA Dries, DJ Zwickl, PO Lewis, DM Hillis
Molecular biology and evolution 19 (10), 1717-1726, 2002
Two living species of coelacanths?
MT Holder, MV Erdmann, TP Wilcox, RL Caldwell, DM Hillis
Proceedings of the National Academy of Sciences 96 (22), 12616-12620, 1999
A Dirichlet process prior for estimating lineage-specific substitution rates
TA Heath, MT Holder, JP Huelsenbeck
Molecular biology and evolution 29 (3), 939-955, 2012
The phylogenetic position of Myxozoa: exploring conflicting signals in phylogenomic and ribosomal data sets
NM Evans, MT Holder, MS Barbeitos, B Okamura, P Cartwright
Molecular biology and evolution 27 (12), 2733-2746, 2010
NeXML: rich, extensible, and verifiable representation of comparative data and metadata
RA Vos, JP Balhoff, JA Caravas, MT Holder, H Lapp, WP Maddison, ...
Systematic biology 61 (4), 675-689, 2012
The big questions for biodiversity informatics
AT Peterson, S Knapp, R Guralnick, J Soberón, MT Holder
Systematics and biodiversity 8 (2), 159-168, 2010
Model parameterization, prior distributions, and the general time-reversible model in Bayesian phylogenetics
DJ Zwickl, MT Holder
Systematic Biology 53 (6), 877-888, 2004
A justification for reporting the majority-rule consensus tree in Bayesian phylogenetics
MT Holder, J Sukumaran, PO Lewis
Systematic biology 57 (5), 814-821, 2008
Evidence for Climate‐driven Diversification? A Caution For Interpreting ABC Inferences of Simultaneous Historical Events
JR Oaks, J Sukumaran, JA Esselstyn, CW Linkem, CD Siler, MT Holder, ...
Evolution 67 (4), 991-1010, 2013
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