[QSB-grads] Fwd: Workshop: 2019 BODEGA APPLIED PHYLOGENETIC WORKSHOP
Miriam Barlow
miriam.barlow at gmail.com
Fri Oct 5 08:52:48 PDT 2018
This course is close by (Bodega Bay) and the course instructors are a dream
team. I wish I could go, but early-middle PhD students get priority and
there are only 30 slots.
---------- Forwarded message ---------
From: <evoldir at evol.biology.mcmaster.ca>
Date: Fri, Oct 5, 2018 at 12:44 AM
Subject: Workshop: 2019 BODEGA APPLIED PHYLOGENETIC WORKSHOP
To: <mbarlow at ucmerced.edu>
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UC Davis WORKSHOP IN APPLIED PHYLOGENETICS
at Bodega Marine Laboratory, Bodega Bay, California
May 25-June 2, 2019
Sponsored by the University of California, Davis and Bodega Marine
Laboratory
website: http://treethinkers.org/
Introduction
Phylogenetic methods have revolutionized modern systematics and become
indispensable tools in evolution, ecology and comparative biology, playing
an increasingly important role in analyses of biological data at all levels
of organization ranging from molecules to ecological communities. The
estimation of phylogenetic trees is now a formalized statistical problem
with general agreement on the central issues and questions. A nearly
standard set of topics is now taught as part of the curriculum at many
colleges and universities. On the other hand, application of phylogenetic
methods to novel problems outside systematics is an area of special
excitement, innovation, and controversy, and perspectives vary widely.
This Spring, for the eighteenth year, we will teach a workshop for graduate
students interested in applying phylogenetic methods to diverse topics in
biology. The 8-day course is an intensive exploration of problems to which
modern phylogenetic approaches are being applied and the most current
statistical tools and methods that are used to solve those problems. We
cover a wide range of topics in comparative statistical phylogenetics. The
course starts with recent advances in phylogenetic inference, and then
focuses on methods for making inferences from phylogenies.
The course will be held at the Bodega Marine Laboratory on the beautiful
Northern California coast, which has on-site housing. The course format
will involve equal parts of lecture and hands-on software training with an
emphasis on performing analyses using RevBayes: http://revbayes.github.io,
with instruction in other inference software (MrBayes, BEAST, etc.) based
on student interest. One afternoon during the week will be left free for
field trips to local natural areas.
Topics Covered
* Estimating, evaluating and interpreting phylogenetic trees
* Recent advances in Bayesian inference of phylogeny
* Model specification: model selection, adequacy and uncertainty
* Diagnosing MCMC performance
* Divergence-time estimation: relaxed clocks, fossil calibration
* Species-tree estimation and species delimitation
* Character evolution: discrete- and continuous-trait evolution
* Lineage diversification: detecting rate shifts, testing
key-innovation hypotheses
Instructor Team
* Sebastian Hohna (LMU, Munich)
* John Huelsenbeck (UC, Berkeley)
* Michael Landis (Washington University)
* Mike May (UC, Berkeley)
* Brian Moore (UC, Davis)
* Bruce Rannala (UC, Davis)
* Bob Thomson (U Hawaii, Manoa)
* Peter Wainwright (UC, Davis)
Prerequisites
Available housing limits course enrollment to ~30 students. Preference is
given to doctoral candidates who are in the early to middle stages of their
thesis research, and who have completed sufficient prerequisites (through
previous coursework or research experience) to provide some familiarity
with phylogenetic methods. Unfortunately, because of limits on class size,
postdocs and faculty are generally discouraged from applying.
Admission and Fees
Students will be admitted based on academic qualifications and
appropriateness of research interests. The course fee is $850. This
includes room and board at BML for duration of the course (arriving on
Saturday, May 25; departing on Sunday, June 2) and return transportation
from Davis to the Bodega Marine Labs.
Application Information
Applications are due by Friday, December 7, 2018. Please fill out our
application form and send your CV and one letter of recommendation from
your major advisor. Applications should be sent via email as PDFs to
jsigao at gmail.com <mailto:jsigao at gmail.com>. Students will be notified via
e-mail by December 14, 2018 of acceptance. Visit the Bodega website for
additional information: http://treethinkers.org/.
Send all application materials to:
Jiansi Gao
Department of Evolution and Ecology
5343 Storer Hall
University of California Davis
Davis, CA
95616
email: jsigao at gmail.com
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class=""><div class=""><div class=""><div class="">UC Davis WORKSHOP IN
APPLIED PHYLOGENETICS</div><div class="">at Bodega Marine Laboratory,
Bodega Bay, California</div><div class=""><br class=""></div><div
class="">May 25-June 2, 2019</div><div class=""><br class=""></div><div
class="">Sponsored by the University of California, Davis and Bodega Marine
Laboratory</div><div class=""><br class=""></div><div class="">website: <a
href="http://treethinkers.org/" class="">http://treethinkers.org/</a></div><div
class=""><br class=""></div><div class="">Introduction</div><div
class="">Phylogenetic methods have revolutionized modern systematics and
become indispensable tools in evolution, ecology and comparative biology,
playing an
increasingly important role in analyses of biological data at all levels
of organization ranging from molecules to ecological communities. The
estimation of phylogenetic trees is now a formalized statistical problem
with general agreement on the central issues and questions. A nearly
standard set of topics is now taught as part of the curriculum at many
colleges and universities. On the other hand, application of phylogenetic
methods to novel problems outside systematics is an area of special
excitement, innovation, and controversy, and perspectives vary
widely.</div><div class=""><br class=""></div><div class="">This Spring,
for the eighteenth year, we will teach a workshop for graduate students
interested in applying phylogenetic methods to diverse topics in biology.
The 8-day course is an intensive exploration of problems to which modern
phylogenetic approaches are being applied and the most current statistical
tools and methods that are used to solve those problems. We c
over a wide range of topics in comparative statistical phylogenetics. The
course starts with recent advances in phylogenetic inference, and then
focuses on methods for making inferences from phylogenies.</div><div
class=""><br class=""></div><div class="">The course will be held at the
Bodega Marine Laboratory on the beautiful Northern California coast, which
has on-site housing. The course format will involve equal parts of lecture
and hands-on software training with an emphasis on performing analyses
using RevBayes: <a href="http://revbayes.github.io" class="">
http://revbayes.github.io</a>, with instruction in other inference software
(MrBayes, BEAST, etc.) based on student interest. One afternoon during the
week will be left free for field trips to local natural areas.</div><div
class=""><br class=""></div><div class="">Topics Covered</div><div
class="">* Estimating, evaluating and
interpreting phylogenetic trees</div><div class="">* &nbs
p; Recent advances in Bayesian inference of
phylogeny</div><div class="">* Model
specification: model selection, adequacy and uncertainty</div><div
class="">* Diagnosing MCMC
performance</div><div class="">*
Divergence-time estimation: relaxed clocks, fossil
calibration</div><div class="">*
Species-tree estimation and species delimitation</div><div class="">*
Character evolution: discrete- and
continuous-trait evolution</div><div class="">*
Lineage diversification: detecting rate shifts, testing
key-innovation hypotheses</div><div class=""><br class=""></div><div
class="">Instructor Team</div><div class="">*
Sebastian Hohna (LMU, Munich)</div><div class="">*
John Huelsenbeck (UC, B
erkeley)</div><div class="">* Michael
Landis (Washington University) </div><div class="">*
Mike May (UC, Berkeley) </div><div class="">*
Brian Moore (UC, Davis)</div><div
class="">* Bruce Rannala (UC,
Davis) </div><div class="">* Bob
Thomson (U Hawaii, Manoa) </div><div class="">*
Peter Wainwright (UC, Davis) </div><div class=""><br
class=""></div><div class="">Prerequisites</div><div class="">Available
housing limits course enrollment to ~30 students. Preference is given to
doctoral candidates who are in the early to middle stages of their thesis
research, and who have completed sufficient prerequisites (through previous
coursework or research experience) to provide some familiarity with
phylogenetic methods. Unfortunately, because of limits on clas
s size, postdocs and faculty are generally discouraged from
applying.</div><div class=""><br class=""></div><div class="">Admission and
Fees</div><div class="">Students will be admitted based on academic
qualifications and appropriateness of research interests. The course fee is
$850. This includes room and board at BML for duration of the course
(arriving on Saturday, May 25; departing on Sunday, June 2) and return
transportation from Davis to the Bodega Marine Labs.</div><div class=""><br
class=""></div><div class=""><div class="">Application
Information</div><div class="">Applications are due by Friday, December 7,
2018. Please fill out our application form and send your CV and one letter
of recommendation from your major advisor. Applications should be sent via
email as PDFs to <a href="mailto:jsigao at gmail.com" class="">
jsigao at gmail.com</a>. Students will be notified via e-mail by
December 14, 2018 of acceptance. Visit the Bodega website for additional i
nformation: <a href="http://treethinkers.org/" class="">
http://treethinkers.org/</a>.</div><div class=""><br
class=""></div></div><div class="">Send all application materials
to:</div><div class=""><br class=""></div><div class="">Jiansi
Gao</div><div class="">Department of Evolution and Ecology</div><div
class="">5343 Storer Hall</div><div class="">University of California
Davis</div><div class="">Davis, CA</div><div class="">95616</div><div
class="">email: <a href="mailto:jsigao at gmail.com"
class="">jsigao at gmail.com</a></div><div
class=""><br class=""></div></div></div></body></html>
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Miriam Barlow
Founding Faculty and Professor
Chair, Quantitative and Systems Biology
University of California, Merced
209.228.4174
miriam.barlow at gmail.com
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