Difference between revisions of "Schedule"

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===[[How to prepare for the Workshop on Molecular Evolution]]===
 
===[[How to prepare for the Workshop on Molecular Evolution]]===
 
===Please download and install the software listed here: [https://molevol.mbl.edu/index.php/Computer_lab_introduction#Downloads Downloads]===
 
===Please download and install the software listed here: [https://molevol.mbl.edu/index.php/Computer_lab_introduction#Downloads Downloads]===
 
===<span style="color:red;">***THE BELOW SCHEDULE FOR 2018 IS UNDER DEVELOPMENT***===
 
  
 
===Opening Activities: 7 PM Thursday, July 19th, Reception in the Meigs Room in the [[:file:Swope-with-Eel-pond.jpg|Swope Building]] ===
 
===Opening Activities: 7 PM Thursday, July 19th, Reception in the Meigs Room in the [[:file:Swope-with-Eel-pond.jpg|Swope Building]] ===
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|-
 
|-
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''19:00-20:30'''
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''19:00-20:30'''
| align="center" width="14.3%" style="background:#F2E0CE" | '''Welcome & opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Terrace]]'''
+
| align="center" width="14.3%" style="background:#F2E0CE" | '''Welcome & opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Bldg.]]'''
| align="center" width="14.3%" | '''[[Rachel Williams|Williams]]'''                          <br/> [https://molevol.mbl.edu/index.php/Computer_lab_introduction '''Intro computer lab''']
+
| align="center" width="14.3%" | '''[[Rachel Williams|Rachel Williams]]'''                          <br/> [https://molevol.mbl.edu/index.php/Computer_lab_introduction '''Intro computer lab''']
 
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''  <br/>([https://molevol.mbl.edu/images/d/d5/ML_search.pdf Maximum likelihood tree searching])
 
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''  <br/>([https://molevol.mbl.edu/images/d/d5/ML_search.pdf Maximum likelihood tree searching])
| align="center" width="14.3%" | '''[[Cecile Ane|Cecile Ane]]'''   <br/>(Network models)  
+
| align="center" width="14.3%" | '''[[Tracy Heath|Heath]]'''       <br/>(Divergence-time estimation lab)  
 
|-
 
|-
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''20:30-22:00'''
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''20:30-22:00'''
| align="center" width="14.3%"  style="background:#F2E0CE"  |  '''Opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Terrace]]'''
+
| align="center" width="14.3%"  style="background:#F2E0CE"  |  '''Opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Bldg.]]'''
| align="center" width="14.3%" | '''[[Rachel Williams|Williams]]'''  <br/>(BLAST &<br/> Alignment lab)
+
| align="center" width="14.3%" | '''[[Rachel Williams|Rachel Williams]]'''  <br/>(BLAST &<br/> Alignment lab)
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''  <br/>([https://mctavishlab.github.io/MLsearchLab Maximum Likelihood Search])
+
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''  <br/>([https://mctavishlab.github.io/MLsearchLab Ascertainment bias & partition models])
| align="center" width="14.3%" | '''[[Cecile Ane|Cecile Ane]]'''   <br/>(Network models)  
+
| align="center" width="14.3%" | '''[[Tracy Heath|Heath]]'''       <br/>(Divergence-time estimation lab)  
 
|-
 
|-
 
|}
 
|}
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| align="center" width="13.5%" | '''[[Laura Eme|Laura Eme]]'''      <br/>(Substitution models for proteins)
 
| align="center" width="13.5%" | '''[[Laura Eme|Laura Eme]]'''      <br/>(Substitution models for proteins)
 
| align="center" width="5%" style="background:#DCDCDC"|  
 
| align="center" width="5%" style="background:#DCDCDC"|  
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]'''    <br/>([https://peterbeerli.com/workshops/mbl/2016/talk1.pdf Introduction to the Coalescence])<br/>   
+
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]'''    <br/>([https://peterbeerli.com/workshops/mbl/2016/talk1.pdf Introduction to the Coalescent])<br/>   
| align="center" width="13.5%" | '''[[Tracy Heath|Heath]]'''       <br/>(Divergence-time estimation)
+
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]'''  <br/>(Multilocus phylogeography and phylogenetics)
+
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]'''  <br/>(Multilocus phylogeography and phylogenetics)
 
| align="center" width="13.5%" |  [https://molevol.mbl.edu/index.php/Faculty '''Workshop faculty'''] <br/>(TBA)   
 
| align="center" width="13.5%" |  [https://molevol.mbl.edu/index.php/Faculty '''Workshop faculty'''] <br/>(TBA)   
 
|-
 
|-
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| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''<br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part3.pdf Statistical analyses])
 
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''<br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part3.pdf Statistical analyses])
 
([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part4.pdf Phenomenologcial load])
 
([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part4.pdf Phenomenologcial load])
| align="center" width="13.5%" | '''[[Laura Eme|Laure Eme]]'''      <br/>(Multi-gene phylogenetics:<br/>methods & applications)
+
| align="center" width="13.5%" | '''[[Laura Eme|Laura Eme]]'''      <br/>(Multi-gene phylogenetics:<br/>methods & applications)
 
| align="center" width="5%" style="background:#DCDCDC"|  
 
| align="center" width="5%" style="background:#DCDCDC"|  
 
| align="center" width="13.5%" | '''[[Laura Kubatko|Kubatko]]'''  <br/>(Species Tree Estimation)
 
| align="center" width="13.5%" | '''[[Laura Kubatko|Kubatko]]'''  <br/>(Species Tree Estimation)
| align="center" width="13.5%" | '''[[Michael Landis|Landis]]'''       <br/>(Historical Biogeography <br/>Intro: RevBayes/Graph. Models )
+
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]''' <br/>(Multilocus phylogeography and phylogenetics)
+
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]'''   <br/>(Multilocus phylogeography and phylogenetics)
 
| align="center" width="13.5%" | '''Workshop faculty'''    <br/>(Participant discussions)
 
| align="center" width="13.5%" | '''Workshop faculty'''    <br/>(Participant discussions)
 
|-
 
|-
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| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''14:00-15:30'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''14:00-15:30'''
 
| align="center" width="13.5%" | '''[[Belinda Chang|Chang]]'''<br/>([https://molevol.mbl.edu/images/3/33/Protein_Evolution_%26_Ancestral_Reconstruction.pdf Protein evolution & ancestral reconstruction])
 
| align="center" width="13.5%" | '''[[Belinda Chang|Chang]]'''<br/>([https://molevol.mbl.edu/images/3/33/Protein_Evolution_%26_Ancestral_Reconstruction.pdf Protein evolution & ancestral reconstruction])
| align="center" width="13.5%" | '''[[Bui Quang Minh|Minh]]'''<br/>(IQ-TREE)
+
| align="center" width="13.5%" | '''[[Bui Quang Minh|Bui Quang Minh]]'''<br/>(IQ-TREE)
 
| align="center" width="5%" style="background:#DCDCDC" |  
 
| align="center" width="5%" style="background:#DCDCDC" |  
 
| align="center" width="13.5%" | '''[[Laura Kubatko|Kubatko]]'''/'''[[David Swofford|Swofford]]''' <br/>(Species Tree Lab I)<br/>
 
| align="center" width="13.5%" | '''[[Laura Kubatko|Kubatko]]'''/'''[[David Swofford|Swofford]]''' <br/>(Species Tree Lab I)<br/>
| align="center" width="13.5%" | '''[[Tracy Heath|Heath]]'''       <br/>(Divergence-time estimation lab)
+
| align="center" width="13.5%" | '''[[Cecile Ane|Cecile Ane]]'''   <br/>(Network models)
 
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]''' <br/>([https://molevol.mbl.edu/index.php/Edwards_lab_notes Species Tree Lab II])<br/>
 
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]''' <br/>([https://molevol.mbl.edu/index.php/Edwards_lab_notes Species Tree Lab II])<br/>
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
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| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''15:30-17:00'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''15:30-17:00'''
 
| align="center" width="13.5%" | '''[[Belinda Chang|Chang]]'''<br/>([https://molevol.mbl.edu/images/a/a3/Adaptive_Protein_Evolution.pdf Adaptive protein evolution])
 
| align="center" width="13.5%" | '''[[Belinda Chang|Chang]]'''<br/>([https://molevol.mbl.edu/images/a/a3/Adaptive_Protein_Evolution.pdf Adaptive protein evolution])
| align="center" width="13.5%" | '''[[Bui Quang Minh|Minh]]'''<br/>(IQ-TREE)
+
| align="center" width="13.5%" | '''[[Bui Quang Minh|Bui Quang Minh]]'''<br/>(IQ-TREE)
 
| align="center" width="5%" style="background:#DCDCDC" |  
 
| align="center" width="5%" style="background:#DCDCDC" |  
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]'''<br/>([https://peterbeerli.com/workshops/mbl/2016/talk2.pdf Extensions to coalescence])
+
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]'''<br/>([https://peterbeerli.com/workshops/mbl/2016/talk2.pdf Extension of the basic coalescent])
| align="center" width="13.5%" | '''[[Michael Landis|Landis]]'''       <br/>(Rev Bayes Biogeography lab)
+
| align="center" width="13.5%" | '''[[Cecile Ane|Cecile Ane]]'''   <br/>(Network models)
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
 
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
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| align="center" width="5%" style="background:#DCDCDC" |  
 
| align="center" width="5%" style="background:#DCDCDC" |  
 
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]''' <br/>( [http://peterbeerli.com/workshops/mbl/2017/tutorial/ migrate tutorial])<br/>
 
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]''' <br/>( [http://peterbeerli.com/workshops/mbl/2017/tutorial/ migrate tutorial])<br/>
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
+
| align="center" width="13.5%" | '''[[Michael Landis|Landis]]'''       <br/>(Historical Biogeography <br/>Intro: RevBayes/Graph. Models )
 
| align="center" width="13.5%" | '''[[Anne Yoder|Yoder]]''' <br/>("Capstone lecture")
 
| align="center" width="13.5%" | '''[[Anne Yoder|Yoder]]''' <br/>("Capstone lecture")
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
| align="center" width="13.5%" style="background:#DCDCDC" |
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| align="center" width="5%" style="background:#DCDCDC"|   
 
| align="center" width="5%" style="background:#DCDCDC"|   
 
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]''' <br/>( [http://peterbeerli.com/workshops/mbl/2017/tutorial/ migrate tutorial])
 
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]''' <br/>( [http://peterbeerli.com/workshops/mbl/2017/tutorial/ migrate tutorial])
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
+
| align="center" width="13.5%" | '''[[Michael Landis|Landis]]'''       <br/>(Rev Bayes Biogeography lab)
 
| align="center" width="13.5%" | '''[[Anne Yoder|Yoder]]''' <br/>("Capstone lecture")
 
| align="center" width="13.5%" | '''[[Anne Yoder|Yoder]]''' <br/>("Capstone lecture")
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
| align="center" width="13.5%" style="background:#DCDCDC" |

Latest revision as of 23:07, 29 January 2018

How to prepare for the Workshop on Molecular Evolution

Please download and install the software listed here: Downloads

Opening Activities: 7 PM Thursday, July 19th, Reception in the Meigs Room in the Swope Building

All morning sessions are in Rowe, afternoons and evenings will be in room G70 of the Loeb building

Group photo: Tuesday July 24 at 10:30 (tentative) outside of Rowe building

First Week

Thursday
(19 July)
Friday
(20 July)
Saturday
(21 July)
Sunday
(22 July)
09:00-10:30 Bielawski
(Welcome &
1 min Student Presentations)
Lewis
(ML phylogenetics)
Lewis
(Bayesian phylogenetics)
10:30-12:00 Holder
(Phylogenetic considerations)
Lewis
(ML phylogenetics)
Lewis
(Bayesian phylogenetics)
12:00-14:00 Lunch break
14:00-15:30 Dunn
(Phylogenomics & methods)
Swofford
(Model selection)
Huelsenbeck
(Simulation lab++)
15:30-17:00 Dunn
(Phylogenomics & methods)
Swofford
(PAUP)
Huelsenbeck
(Why I like ML & Bayes)
17:00-19:00 Dinner break
19:00-20:30 Welcome & opening reception
Swope Bldg.
Rachel Williams
Intro computer lab
McTavish
(Maximum likelihood tree searching)
Heath
(Divergence-time estimation lab)
20:30-22:00 Opening reception
Swope Bldg.
Rachel Williams
(BLAST &
Alignment lab)
McTavish
(Ascertainment bias & partition models)
Heath
(Divergence-time estimation lab)


Second Week

Monday
(23 July)
Tuesday
(24 July)
Wednesday
(25 July)
Thursday
(26 July)
Friday
(27 July)
Saturday
(28 July)
Sunday
(29 July)
09:00-10:30 Bielawski
(Drift, selection & codon models)
Laura Eme
(Substitution models for proteins)
Beerli
(Introduction to the Coalescent)
Knowles
(Evolutionary applications of genomic data)
Edwards
(Multilocus phylogeography and phylogenetics)
Workshop faculty
(TBA)
10:30-12:00 Bielawski
(Statistical analyses)

(Phenomenologcial load)

Laura Eme
(Multi-gene phylogenetics:
methods & applications)
Kubatko
(Species Tree Estimation)
Knowles
(Evolutionary applications of genomic data)
Edwards
(Multilocus phylogeography and phylogenetics)
Workshop faculty
(Participant discussions)
12:00-14:00 Lunch break
14:00-15:30 Chang
(Protein evolution & ancestral reconstruction)
Bui Quang Minh
(IQ-TREE)
Kubatko/Swofford
(Species Tree Lab I)
Cecile Ane
(Network models)
Edwards
(Species Tree Lab II)
Open lab
15:30-17:00 Chang
(Adaptive protein evolution)
Bui Quang Minh
(IQ-TREE)
Beerli
(Extension of the basic coalescent)
Cecile Ane
(Network models)
Open lab Open lab
17:00-19:00 Dinner break
19:00-20:30 Bielawski
(PAML lab)
(Lab slides)
Course dinner party
Lobster Boil, Terrace
Starts at 6pm
Beerli
( migrate tutorial)
Landis
(Historical Biogeography
Intro: RevBayes/Graph. Models )
Yoder
("Capstone lecture")
20:30-22:00 Bielawski
(Additional resources)
(Advanced lab)
Course dinner party Beerli
( migrate tutorial)
Landis
(Rev Bayes Biogeography lab)
Yoder
("Capstone lecture")