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IGERT Workshop:

Rasmus Nielsen
April 9-11, 2006

Rasmus Nielsen will be visiting from April 9-11. He works on a variety of topics related to population genetics, comparative genomics, and methods for detecting positive selection from protein coding sequences. For more information, you can view his lab website at: http://www.binf.ku.dk/~rasmus/webpage/ras.html. He will be giving a workshop for graduate students, sponsored by the IGERT program, on using codon models and likelihood ratio tests to detect positive selection in protein coding sequences. He and Ziheng Yang have developed the most commonly used models and methods in this area. His workshop will focus on these topics, and there will be a computer lab where he will demonstrate how to use PAML to implement these models. I'll send around an exact schedule for the workshop when we have one.

His visit will be a short one, but he may have some time for individual meetings. If you have any questions, contact me (alverson@mail.utexas.edu) or Tracy Heath (tracyh@mail.utexas.edu).

Slides for Dr. Nielsen's talk

 

Computational Biology Software Demonstrations

Friday, Oct 15th

ACES 3.408

4:00 PM


Anyone interested in seeing an informal demonstration of software developed through an NSF grant on Visualizing the Tree of Life is invited to attend a session in ACES 3.408 at 4 PM on Friday, 14 October. Programs include Tree Set Visualization (for visualizing tree space occupied by large sets of phylogenetic solutions), TreeJuxtaposer (for visualizing and comparing large sets of trees), SequenceJuxaposer (for comparing aligned sets of sequences), and a program for morphology visualization. Informal presentations will be made by Nina Amenta, Katherine St. John, and Tamara Munzner.



Computational Phylogenetics and Applications to Biology Seminar

Wed., Oct 6th

PAT 141 SA

12:00 PM

Brad Hall will discuss:
"Deep phylogeny inference based on profile distances"


Computational Phylogenetics and Applications to Biology Seminar

Wed., Sept. 29th

PAT 141SA

12:00 P.M.

Mary Guisinger will discuss:
"The Effects of Base Composition Bias on Phylogenetic Analysis"

 

Computational Clusters for Higher Education Scientific Research

Monday, Feburary 2

ICES Seminar Room
6.304 ACES Building

The presentation will be made twice, once in the morning and once in the afternoon.

10:00AM - 11:30AM
2:00PM - 3:30PM

Guest Speaker:Matt MacInnis, Higher Ed Scientific Research Market Manager for Apple Computer

Agenda: Matt MacInnis, a graduate of Carnegie Mellon University and currently employed by
Apple to develop products and marketing for Higher Education Scientific Research customers, will be at The University of Texas on Monday, February 2. Matt will conduct a short presentation on Computational Clusters for Higher Education Research. He will also discuss Apple's recent announcements for the science and research markets and then conduct a group discussion on the needs of the Sci/Tech communities at UT.


IGERT Ethics Seminar

Date: Jan. 12-14
Event: Ethics Seminar
Location: ENS 637
Time: 12:00 P.M. - 5:00 P.M.

Spring 2004 IGERT Courses:

Other Related Graduate Courses:

  • Issues in Population Biology

    Instructors: Juenger and Parmesan

  • Evolution

    Instructors: Linder and Muellar

  • Biogeography

    Instructor: Simpson

  • Insect - Plant Relationships

    Instructors: Singer and Woods

  • Evolutionary Model Systems

    Instructor: Meyers

 

 

Computer Architecture Seminar Series

Date: Mon, 25 Aug 2003 07:17:46 -0500
Event: Computer Architecture Seminar Series
Speaker: Alex Dean - North Carolina State University
Title: "Building Demanding Hard Real-Time Systems with Software Thread Integration"
Date: Monday, August 25, 2003
Location: ACES 2.402
Time: 3:00 pm
Coffee: 2:30 pm
Host: Yale Patt

 

Phylocluster Orientation

Subject: Introduction to Phylocluster
When: Friday, April 18, 2003
Time: 2:30 - 4:00
Place: ACES 3.408

Information: Phylocluster is a 8 node cluster provided by the IGERT grant that is intended to be used mainly for computational work directly related to phylogeny. Phylocluster is available to members of the Center for Computational Biology and Bioinformatics with preference given to those directly supported through the IGERT program. This event will cover basic cluster usage including accessing the cluster, scheduling jobs as well as some basic Unix concepts.

Any questions can be directed to Chris Simmons, at csim@cs.utexas.edu

 


Bayesian Phylogenetics


Workshop Schedule

Wed, 9 April 9-11 am ENS 116

Lecture Calculating likelihood,modeling assumptions,codon models, stem-loop models, and covarion models

 

Wed, 9 April 1-3 pm ESB 101

Lab* Introduction to MrBayes 3.0

 

Thurs, 10 April 10-12 am UTC 4.134

Lecture Estimating parameters, Bayesian methods, MCMC, summarizing posterior probabilities, problems with Bayesian analyses

 

Fri, 11 April 9-11 am UTC 1.102 Lecture Comparative method, continuous & discrete characters, positive selection

 

Fri, 11 April 1-3 pm ESB101

Lab* Specifying models, partitioning data, & other fun stuff

 

* Lectures are open for all, but space is limited for laboratory sessions. Please email tracyh@mail.utexas.edu to sign up.