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The Exploration of Effect of Model Misspecification and Development of an Adequacy-Test for Substitution Model in Phylogenetics

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dc.contributor.author Chen, Wei Jr
dc.date.accessioned 2012-11-16T13:15:21Z
dc.date.available 2012-11-16T13:15:21Z
dc.date.issued 2012-11-16
dc.identifier.uri http://hdl.handle.net/10222/15705
dc.description.abstract It is possible that the maximum likelihood method can give an inconsistent result when the DNA sequences are generated under a tree topology which is in the Felsentein Zone and analyzed with a misspeci ed model. Therefore, it is important to select a good substitution model. This thesis rst explores the e ects of di erent degrees and types of model misspeci cation on the maximum likelihood estimates. The results are presented for tree selection and branch length estimates based on simulated data sets. Next, two Pearson's goodness-of- t tests are developed based on binning of site patterns. These two tests are used for testing the adequacy of substitution models and their performances are studied on both simulated data sets and empirical data. en_US
dc.language.iso en_US en_US
dc.subject model misspecification en_US
dc.subject statistical test en_US
dc.title The Exploration of Effect of Model Misspecification and Development of an Adequacy-Test for Substitution Model in Phylogenetics en_US
dc.date.defence 2012-11-06
dc.contributor.department Department of Mathematics & Statistics - Statistics Division en_US
dc.contributor.degree Master of Science en_US
dc.contributor.external-examiner n/a en_US
dc.contributor.graduate-coordinator Dr. David Hamilton en_US
dc.contributor.thesis-reader Dr. Edward Susko en_US
dc.contributor.thesis-reader Dr. Toby Kenney en_US
dc.contributor.thesis-supervisor Dr. Hong Gu and Dr. Joseph Bielawski en_US
dc.contributor.ethics-approval Not Applicable en_US
dc.contributor.manuscripts Not Applicable en_US
dc.contributor.copyright-release Not Applicable en_US


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