PHYLOSEMINAR.ORG

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Next on phyloseminar.org. Primer part 1: tree terminology and substitution models. This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis. Part 1 covers terminology used in describing phylogenetic trees and the basic features of substitution models, including a survey of the common GTR family of models as well as codon and amino acid models. Primer part 2: tree likelihood and rate heterogeneity. Primer part 3a: introduction to Bayesian statistics.

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phyloseminar.org | home | phyloseminar.org Reviews

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Next on phyloseminar.org. Primer part 1: tree terminology and substitution models. This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis. Part 1 covers terminology used in describing phylogenetic trees and the basic features of substitution models, including a survey of the common GTR family of models as well as codon and amino acid models. Primer part 2: tree likelihood and rate heterogeneity. Primer part 3a: introduction to Bayesian statistics.

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9 university of connecticut

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phyloseminar.org | home | phyloseminar.org Reviews

https://phyloseminar.org

Next on phyloseminar.org. Primer part 1: tree terminology and substitution models. This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis. Part 1 covers terminology used in describing phylogenetic trees and the basic features of substitution models, including a survey of the common GTR family of models as well as codon and amino acid models. Primer part 2: tree likelihood and rate heterogeneity. Primer part 3a: introduction to Bayesian statistics.

INTERNAL PAGES

phyloseminar.org

1

phyloseminar.org | attending

http://phyloseminar.org/attending.html

Seminars are held via Google Hangouts. In order to attend, you'll need to be logged in to a Google account. Enabled. Once you're logged in, visit our Google page. A few minutes before the scheduled start of the seminar. You'll see a post for the live seminar; click the link to join. (You can also follow us on Google , in which case these posts will show up on your Google home page.). If you'd rather not create a Google/Google account, don't worry! When the seminar is over.

2

phyloseminar.org | recorded

http://phyloseminar.org/recorded.html

A brief history of computational phylogenetics. Structure and molecular evolution. What determines amino acid substitution rates? University of Texas at Austin. Structural and functional constraints on protein evolution. Using experiments to inform phylogenetic models of substitution. New routes to phylogeography: a Bayesian structured coalescent approximation. Preferential sampling through time when estimating changes in effective population size. Muséum National dHistoire Naturelle, Paris. Ebola virus ...

3

phyloseminar.org | about

http://phyloseminar.org/about.html

The purpose of this site is to organize an online phylogenetics. Seminar held via videoconferencing. By having a regular online seminar, we hope to. Provide an international forum for the discussion of phylogenetics methodology. To complement that happening at existing meetings. Disseminate information on phylogenetic best practice. By having seminars freely viewable by the public. Reduce our carbon footprint. By meeting online rather than in person. Ahead of time, and join the mailing list.

4

phyloseminar.org | home

http://phyloseminar.org/index.html

Next on phyloseminar.org. Combating phylogenetic artefacts by modelling site-specific subsitution processes with mixture models. Modeling substitutional heterogeneity and its impact on inferring relationships.

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microseminar.wordpress.com

Thoughts | MicroSeminar | Home of the Web-based Microbiology Seminar Series

https://microseminar.wordpress.com/thoughts

Home of the Web-based Microbiology Seminar Series. Open seminars: a new and good idea. One of the things I liked best about being an academic researcher was group meeting. Every week, a different student or scholar would present some fresh data from their own projects. And these meetings were casual and interactive: you could interrupt any time with questions. That isn’t the case with MicroSeminar. It’s a new(ish) online-only, publicly accessible research seminar in microbiology created by Jennifer Biddle.

evo-karma.blogspot.com

Evo-Karma: Share your trees and reduce your carbon footprint

http://evo-karma.blogspot.com/2012/04/share-your-trees-and-reduce-your-carbon.html

All about the good, the bad and the ugly things in life but mainly stuff about evolution, diversity of life, life forms and morphogenesis, phylogenies, trees and insects. Lots of biological news and comments. Cool discoveries of new species etc. Friday, April 13, 2012. Share your trees and reduce your carbon footprint. I recently attended the SPDG. At the SPDG, we also had a video conference from Erick Matsen. And fortunately this time it was on topic. Erick is the organiser of phyloseminar. The pace at ...

blackrim.org

Uncategorized – Lab of Stephen A. Smith

http://blackrim.org/category/uncategorized

Lab of Stephen A. Smith. Postdocs getting jobs in the lab! Ya Yang has been a member of the lab working on transcriptomics in Caryophyllales and will be moving on to a position at UMinn this fall. Congrats Ya! Http:/ www.yangya.org/. James Pease has been a member of the lab working on the Andes and got a position at Wake Forest. Congrats! Https:/ peaselab.github.io/. Two new postdocs will be joining the lab. More on that in a bit. Caroline Parins-Fukuchi has decided to join the lab as a graduate student!

matsen.fhcrc.org

Matsen Group: service

http://matsen.fhcrc.org/service.html

We started and run these initiatives:. A free online seminar about phylogenetics, since 2009. A discussion forum for phylogenetics, since 2014. To educate about and promote access to computational resources at the Fred Hutch, since 2014. A discussion forum for adaptive immune repertoire analysis, since 2016.

blackrim.org

Phyloseminar notes – Lab of Stephen A. Smith

http://blackrim.org/phyloseminar-notes

Lab of Stephen A. Smith. Here are some instructions for the phylo seminar demos. Get input files from here. Http:/ blackrim.org/datafiles/phylo seminar files2014.tar.gz. Get taxonomy from here. Http:/ files.opentreeoflife.org/ott/. Git clone https:/ github.com/OpenTreeOfLife/treemachine.git. Git clone https:/ github.com/OpenTreeOfLife/gcmdr.git. Git clone https:/ blackrim@bitbucket.org/blackrim/avatol nexsons.git. DEMO 1 - atol trees. DEMO 2 - tree taxonomy. Python load taxonomy.py. DEMO 3 - birds.

phyloworks.org

Heath Lab – EEOB – Iowa State University

http://phyloworks.org/resources/links.html

Heath Lab @ ISU. Join the Heath Lab. Phylobabble: http:/ phylobabble.org/. Phyloseminar: http:/ phyloseminar.org/. Society of Systematic Biologists (SSB): http:/ systbiol.org/. Society for Advancement of Hispanics/Chicanos and Native Americans in Science (SACNAS): http:/ sacnas.org/. Society of Vertebrate Paleontology (SVP): http:/ vertpaleo.org/. EvolDir: http:/ evol.mcmaster.ca/evoldir.html. Phylopic: http:/ phylopic.org/. Theme based on Bootstrap.

blackrim.org

Lab of Stephen A. Smith – Page 2

http://blackrim.org/page/2

Lab of Stephen A. Smith. Preprint of OpenTree paper. We posted a bioarxiv version of our OpenTree paper that is in review here. EEB 491 phylogenetics course offered next semester. There is code that implements most of what we go over here. New paper with Ya Yang and Smith. Ya Yang and Smith published a paper in MBE on orthology methods and phylogenomics. Check it here. New paper with Cody Hinchliff and Smith. Here are some instructions for the phylo seminar demos. Get input files from here. DEMO 3 - birds.

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phyloseminar.org

phyloseminar.org | home

Next on phyloseminar.org. Primer part 1: tree terminology and substitution models. This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis. Part 1 covers terminology used in describing phylogenetic trees and the basic features of substitution models, including a survey of the common GTR family of models as well as codon and amino acid models. Primer part 2: tree likelihood and rate heterogeneity. Primer part 3a: introduction to Bayesian statistics.

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