User:Carl Boettiger/Notebook/Comparative Phylogenetics/2010/09/07
 Comparative Phylogenetics
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Meeting with Sam<html> Discussing elements of likelihood ratio manuscript and review results from release of constraint data. Figure out what to include in one manuscript, what order to present elements in, and what examples are necessary. <ul> <li>Phylogenetic Signal introduction. Need for examples? A good example where phylogenetically independent contrasts is misleading, but lambda/K definition of phylogenetic signal is also misleading.</li> <li>Power in phylogenetic tree:</li> <li><img class="alignnone" title="Power in Trees" src="http://openwetware.org/images/8/8c/Full_power_examples.png" alt="" width="504" height="504" /></li> <li>Likelihood ratio and model choice: Monte Carlo LR approach, support in the literature http://openwetware.org/wiki/User:Carl_Boettiger/Notebook/Comparative_Phylogenetics/2010/08/25. <ul> <li>Release of Constraint. <a href="http://openwetware.org/wiki/User:Carl_Boettiger/Notebook/Comparative_Phylogenetics/2010/07/28">Cetartiodactyle body size</a>, <a href="http://openwetware.org/wiki/User:Carl_Boettiger/Notebook/Comparative_Phylogenetics/2010/07/26">Parrotfish</a>, <a href="http://openwetware.org/wiki/User:Carl_Boettiger/Notebook/Comparative_Phylogenetics/2010/08/05">others</a>.</li> </ul> </li> <object classid="clsid:d27cdb6e-ae6d-11cf-96b8-444553540000" width="400" height="300" codebase="http://download.macromedia.com/pub/shockwave/cabs/flash/swflash.cab#version=6,0,40,0"><param name="flashvars" value="offsite=true&lang=en-us&page_show_url=%2Fphotos%2Fcboettig%2Ftags%2FLR_anoles%2Fshow%2F&page_show_back_url=%2Fphotos%2Fcboettig%2Ftags%2FLR_anoles%2F&user_id=46456847@N08&tags=LR_anoles&jump_to=&start_index=" /><param name="allowFullScreen" value="true" /><param name="src" value="http://www.flickr.com/apps/slideshow/show.swf?v=71649" /><param name="allowfullscreen" value="true" /><embed type="application/x-shockwave-flash" width="400" height="300" src="http://www.flickr.com/apps/slideshow/show.swf?v=71649" allowfullscreen="true" flashvars="offsite=true&lang=en-us&page_show_url=%2Fphotos%2Fcboettig%2Ftags%2FLR_anoles%2Fshow%2F&page_show_back_url=%2Fphotos%2Fcboettig%2Ftags%2FLR_anoles%2F&user_id=46456847@N08&tags=LR_anoles&jump_to=&start_index="></embed></object></ul> </html> Run analyses directly in lab notebook<html> <script src="http://gist.github.com/569188.js?file=anoles_demo.R"></script> <iframe src="http://www.monkeyanalytics.com/session/207e535c53a94fe586226bc14e13a39b/popout" width="100%" height="300"></iframe> </html>
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