phyletica.org
phyleticaExploring biodiversification
http://www.phyletica.org/
Exploring biodiversification
http://www.phyletica.org/
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phyletica | phyletica.org Reviews
https://phyletica.org
Exploring biodiversification
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Teaching – phyletica
http://phyletica.org/teaching
Photo Credit: Jamie Oaks. Auburn-phylo graphic 2014 Milton Tan. Based on the Minimal Mistakes. Unless noted, content is licensed under a Creative Commons Attribution 4.0 International License.
Publications – phyletica
http://phyletica.org/publications
Photo Credit: Jamie Oaks. Lira-Noriega A., Toro-Núñez O., Oaks JR., Mort ME. 2015. The roles of history and ecology in chloroplast phylogeographic patterns of the bird-dispersed plant parasite textitPhoradendron californicum Nutt. (Viscaceae) in the Sonoran Desert. American Journal of Botany. Oaks JR., Linkem CW., Sukumaran J. 2014. Implications of uniformly distributed, empirically informed priors for phylogeographical model selection: A reply to Hickerson et al. Evolution. Conservation genetics of Kiku...
Software – phyletica
http://phyletica.org/software
Photo Credit: Jamie Oaks. Most of my packages, scripts, and other projects are freely available on GitHub. Below are descriptions of a few. I am a developer for the software pacakge SATé. Is a tool for inferring a sequence alignment and phylogenetic tree using an iterative algorithm. In each iteration, the data set is divided into smaller subproblems by a tree-based decomposition, which are subsequently aligned before being merged back together for phylogenetic tree inference.
All Posts – phyletica
http://phyletica.org/posts
Photo Credit: Jamie Oaks. Enjoying an early Spring in Provo. Converting PDF slides to animated GIFs and videos with ImageMagick. The power and flexiblity of Imagemagick command-line tools is . magickal. The Dirichlet process for dummies (i.e., biologists, like me). An accessible introduction to how the Dirichlet process works and why it's useful. Teaching-assessment survey for phylogenetics. A learning-assessment survey for an Applied Phylogenetics course. Avoiding Type 3 fonts in matplotlib plots.
Visiting Provo – phyletica
http://phyletica.org/byu-visit
Photo Credit: Jamie Oaks. Last week, I had the pleasure of visiting the Biology Department. To give a seminar. On my research. It was my first time visiting the Utah Valley. Over the years, I have heard about the beauty of the area from many friends and colleagues. Tucked up against the Wasatch Range on the eastern edge of the Great Basin, the Utah Valley was even more breathtaking than I expected. The header photo above was taken through my hotel room window a few blocks from the BYU. I presented my sem...
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Jamie Oaks | phylo.bio.ku.edu
http://phylo.bio.ku.edu/content/jamie-oaks
Former Ph.D. student. I completed my Ph.D. in the Fall of 2013 working with Mark and Rafe Brown. More information about me can be found on my website phyletica.org. Assistant Professor (Starting August 2016). Department of Biological Sciences. 101 Rouse Life Sciences Building. Auburn, Alabama 36849. NSF Postdoctoral Fellow (Current). Departments of Biology and Statistics. Seattle, WA 98195. Is part of the Department of Ecology and Evolutionary Biology.
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Phyletica | Biodiversification
Applied Phylogenetics- -Divergence-time estimation. Applied Phylogenetics- -Learning-assessment survey. Welcome. My name is Jamie Oaks. I am an evolutionary biologist and NSF Postdoctoral Research Fellow. Working with Adam Leaché. At the University of Washington. I recently received my Ph.D. from the University of Kansas. Working with Rafe Brown. On this site, you can find more information about my ongoing research. As well as read my blog. Where I post along the way. You can also find my CV here.
phyletica
Photo Credit: Jamie Oaks. Welcome to the Phyletica Lab, which is setting up shop next fall in the Department of Biological Sciences. And Musuem of Natural History. My name is Jamie Oaks. And I start as an Assistant Professor at Auburn in August 2016. Currently, I am an NSF Postdoctoral Research Fellow. Working with Adam Leaché. At the University of Washington. On this site, you can find more information about our ongoing research. As well as read our blog. Enjoying an early Spring in Provo.
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