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]===
===Make T shirt suggestions [[Shirts2017]] !===
 
  
Shirts from previous years [https://molevol.mbl.edu/index.php/Previous_MBL_Molecular_Evolution_Workshop_T-Shirts here]!
+
===Opening Activities: <span style="color:red">6 PM Thursday, July 19th</span>, Reception in the Meigs Room in the [[:file:Swope-with-Eel-pond.jpg|Swope Building]] ===
  
===All morning sessions are in Rowe, afternoons and evenings will be in room G70 of the Loeb building ===
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===All morning sessions are in the Speck Auditorium in the [[:file:rowe.jpg|Rowe Building]], afternoons and evenings will be in room G70 of the [[:file:Loeb.jpeg|Loeb building]] ===
===Opening Reception: 7 PM Sunday, July 20th, <span style="color:#ff0000"> LOCATION CHANGE (new location will be updated soon</span>)===
 
  
 +
===Group photo: Tuesday July 24th, 10:30 (tentative) outside of Rowe building===
 +
<br>
 +
 +
=='''Optional programming module:'''==
 +
'''Time:  daily from 8am-8:45am''' <br>
 +
'''Location:  room 263 [[:file:Loeb.jpeg|Loeb building]] (2nd floor)'''<br>
 +
'''Instructor:  [[John Huelsenbeck|Huelsenbeck]]'''<br>
 +
[[File:Programming.pdf]]
 +
 +
See also the [[optional programming module]] page.
  
 
== First Week ==
 
== First Week ==
  
{| border="1" width="57%"
+
{| border="1" width="65%"
 
|- style="background:SteelBlue"
 
|- style="background:SteelBlue"
 
| align="center" width="14.3%" |  
 
| align="center" width="14.3%" |  
| align="center" width="14.3%" style="color:white" | '''Thursday'''<br/>(20 July)
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| align="center" width="14.3%" style="color:white" | '''Thursday'''<br/>(19 July)
| align="center" width="14.3%" style="color:white" | '''Friday'''<br/>(21 July)
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| align="center" width="14.3%" style="color:white" | '''Friday'''<br/>(20 July)
| align="center" width="14.3%" style="color:white" | '''Saturday'''<br/>(22 July)
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| align="center" width="14.3%" style="color:white" | '''Saturday'''<br/>(21 July)
| align="center" width="14.3%" style="color:white" | '''Sunday'''<br/>(23 July)
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| align="center" width="14.3%" style="color:white" | '''Sunday'''<br/>(22 July)
 
|-
 
|-
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''09:00-10:30'''
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''09:00-10:30'''
 
| align="center" width="14.3%" style="background:#DCDCDC" |
 
| align="center" width="14.3%" style="background:#DCDCDC" |
| align="center" width="14.3%" | '''[[Anne Yoder|Yoder]]'''      <br/>(Welcome, Introduction &<br/> '''1 min Student Presentations''')
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| align="center" width="14.3%" | '''[[Bielawski|Bielawski]]'''      <br/>(Welcome &<br/> '''1 min Student Presentations''')
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(ML phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(ML phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(Bayesian phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(Bayesian phylogenetics)
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| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''10:30-12:00'''
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''10:30-12:00'''
 
| align="center" width="14.3%" style="background:#DCDCDC" |
 
| align="center" width="14.3%" style="background:#DCDCDC" |
| align="center" width="14.3%" | '''[[David Hillis|Hillis]]'''  <br/>(Power, efficiency, consistency)
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| align="center" width="14.3%" | '''[[MarkHolder|Holder]]'''  <br/>([http://phylo.bio.ku.edu/woodshole/phylogenetics_intro_2018.pdf Intro. to Phylogenetics])
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(ML phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(ML phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(Bayesian phylogenetics)
 
| align="center" width="14.3%" | '''[[Paul Lewis|Lewis]]'''      <br/>(Bayesian phylogenetics)
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| align="center" width="14.3%" style="background:#DCDCDC" |
 
| align="center" width="14.3%" style="background:#DCDCDC" |
 
| align="center" width="14.3%" | '''[[Casey Dunn|Dunn]]'''                <br/>(Phylogenomics & methods)
 
| align="center" width="14.3%" | '''[[Casey Dunn|Dunn]]'''                <br/>(Phylogenomics & methods)
| align="center" width="14.3%" | '''[[David Swofford|Swofford]]'''        <br/>(PAUP)
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| align="center" width="14.3%" | '''[[David Swofford|Swofford]]'''        <br/>([http://phylosolutions.com/paup-tutorial/ Model-selection tutorial])([http://paup.phylosolutions.com/ PAUP])
 
| align="center" width="14.3%" | '''[[John Huelsenbeck|Huelsenbeck]]'''  <br/>(Why I like ML & Bayes)  
 
| align="center" width="14.3%" | '''[[John Huelsenbeck|Huelsenbeck]]'''  <br/>(Why I like ML & Bayes)  
 
|-
 
|-
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''17:00-19:00'''
 
| align="center" width="14.3%" height="30" style="background:#c8ccd1"  | '''17:00-19:00'''
| align="center" width="14.3%" colspan="6" style="background:#DCDCDC | Dinner break
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| align="center" width="14.3%" style="background:#F2E0CE | Welcome reception starts at 6PM
 +
| align="center" width="14.3%" colspan="5" style="background:#DCDCDC | Dinner break
 
|-
 
|-
 
| 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%" | [https://molevol.mbl.edu/index.php/Computer_lab_introduction '''Computer lab, room G70 Loeb'''<br/>[https://molevol.mbl.edu/images/1/1b/Computer_Lab_intro.pdf  '''(slides)''']
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| align="center" width="14.3%" style="background:#F2E0CE" | '''Welcome & opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Bldg.]]'''
| align="center" width="14.3%" | '''[[William_Pearson|Pearson]]'''       <br/>(Sequence homology)
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| 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%" | '''[[MarkHolder|Holder]]'''             <br/>(Branch support & tree tests)
+
| 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/>(Large scale phylogenetics)
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| align="center" width="14.3%" | '''[[Michael Landis|Landis]]'''       <br/>([https://molevol.mbl.edu/images/c/ce/Phylo_pgm_wh_2018_mlandis.pdf Lecture: Graphical Models & RevBayes])  
 
|-
 
|-
 
| 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%" |  '''Opening reception''' <br/>'''Swope terrace'''
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| align="center" width="14.3%" style="background:#F2E0CE"  |  '''Opening reception''' <br/>'''[[:file:swope_terrace.jpg|Swope Bldg.]]'''
| align="center" width="14.3%" | '''[[William_Pearson|Pearson]]'''       <br/>(FASTA/BLAST lab)
+
| align="center" width="14.3%" | '''[[Rachel Williams|Rachel Williams]]'''                         <br/> ([https://molevol.mbl.edu/index.php/Alignment_tutorial '''Alignment lab'''])
| align="center" width="14.3%" | '''[[MarkHolder|Holder]]'''             <br/>(Branch support & tree tests)
+
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''   <br/>([https://mctavishlab.github.io/MLsearchLab Ascertainment bias & partition models])
| align="center" width="14.3%" | '''[[Emily Jane McTavish|McTavish]]'''   <br/>(GARLI & RaxML)
+
| align="center" width="14.3%" | '''[[Tracy Heath|Heath]]'''       <br/>([https://figshare.com/articles/Bayesian_Divergence-Time_Estimation_Lecture/6849005 Lecture: Divergence time estimation])  
 
|-
 
|-
 
|}
 
|}
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|- style="background:SteelBlue"
 
|- style="background:SteelBlue"
 
| align="center" width="13.5%" |  
 
| align="center" width="13.5%" |  
| align="center" width="13.5%" style="color:white" | '''Monday'''<br/>(24 July)
+
| align="center" width="13.5%" style="color:white" | '''Monday'''<br/>(23 July)
| align="center" width="13.5%" style="color:white" | '''Tuesday'''<br/>(25 July)
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| align="center" width="13.5%" style="color:white" | '''Tuesday'''<br/>(24 July)
| align="center" width="5%" style="color:white" | '''Wednesday'''<br/>(26 July)
+
| align="center" width="5%" style="color:white" | '''Wednesday'''<br/>(25 July)
| align="center" width="13.5%" style="color:white" | '''Thursday'''<br/>(27 July)
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| align="center" width="13.5%" style="color:white" | '''Thursday'''<br/>(26 July)
| align="center" width="13.5%" style="color:white" | '''Friday'''<br/>(28 July)
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| align="center" width="13.5%" style="color:white" | '''Friday'''<br/>(27 July)
| align="center" width="13.5%" style="color:white" | '''Saturday'''<br/>(29 July)
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| align="center" width="13.5%" style="color:white" | '''Saturday'''<br/>(28 July)
| align="center" width="13.5%" style="color:white" | '''Sunday'''<br/>(30 July)
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| align="center" width="13.5%" style="color:white" | '''Sunday'''<br/>(29 July)
 
|-
 
|-
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''09:00-10:30'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''09:00-10:30'''
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''    <br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Parts1and2.pdf Codon models, Parts1and2])
+
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''    <br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab/slides/WH2018_Parts1and2_Slides.pdf Drift, selection & codon models])
| align="center" width="13.5%" | '''[[Tracy Heath|Heath]]'''      <br/>(Integrative Bayesian Analyses)
+
| 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%" | '''[[David Weisrock|Weisrock]]'''     <br/>(species delimitation and lineage sorting)
+
| 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%" | '''[[Michael Landis|Landis]]'''       <br/>(Lab: Phylogenetics w/ RevBayes; [https://molevol.mbl.edu/images/3/32/Lab_phylo_pgm_mlandis_WH2018.pdf slides]) <br/>('''Room change:''' <br/>Loeb, G70)
| align="center" width="13.5%" | '''[[Conor Meehan|Meehan]]'''    <br/>(Phylodynamics: the use of phylogeny in epidemiology)
+
| align="center" width="13.5%" | [[Mark Holder| Holder]] <br/>(Sci. ethics, tree testing, Open Tree of Life)
|-
+
|-  
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''10:30-12:00'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''10:30-12:00'''
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''<br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part3.pdf Codon models, Part3])
+
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''<br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab/slides/WH2018_Part3_slides.pdf Statistical analyses])
([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab_v2/slides/WH2017_Part4.pdf Part4])
+
([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab/slides/WH2018_Part4_slides.pdf Phenomenologcial load])
| align="center" width="13.5%" | '''[[Tracy Heath|Heath]]'''<br/>(Divergence-time estimation and Biogeography])
+
| 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%" | '''[[Mario dos Reis|dos Reis]]''' <br/>(Bayesian species delimitation)
+
| 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%" | '''[[Michael Landis|Landis]]'''       <br/>(Lab: Phylogenetics w/ RevBayes; [https://revbayes.github.io/tutorials/intro/ lab1], [https://revbayes.github.io/tutorials/ctmc/ lab2]) <br/>('''Room change:''' <br/>Loeb, G70)
| align="center" width="13.5%" | '''[[Conor Meehan|Meehan]]'''    <br/>(Participant discussions)
+
| align="center" width="13.5%" | '''Workshop faculty'''    <br/>(Participant discussions)
 
|-
 
|-
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''12:00-14:00'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''12:00-14:00'''
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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/>(Adaptive molecular evolution)
+
| 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%" | '''[[Tracy Heath|Heath]]'''<br/>([http://revbayes.com RevBayes])
+
| 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%" | '''[[Mario dos Reis|dos Reis]]''' <br/>(BPP Tutorial)  
+
| 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%" | '''[[Tracy Heath|Heath]]'''       <br/>(Lab: Divergence time estimation w/ RevBayes)
| align="center" width="13.5%" | '''Open lab'''
+
| align="center" width="13.5%"  style="background:#F2FFE6" | '''Open lab'''
 
|-
 
|-
 
| 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/>(Adaptive molecular 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%" | '''[[Tracy Heath|Heath]]'''<br/>([http://revbayes.com RevBayes])
+
| 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%" | '''[[David Weisrock|Weisrock]]''' <br/>(Intro to RADseq)
+
| align="center" width="13.5%" | '''[[Cecile Ane|Cecile Ane]]'''   <br/>(Network models)
| align="center" width="13.5%" | '''Workshop team'''<br/>(Species Tree Lab III: *BEAST)<br/>
+
| align="center" width="13.5%" | '''[[Tracy Heath|Heath]]'''       <br/>(Lab: Divergence time estimation w/ RevBayes)  
| align="center" width="13.5%" | '''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" | '''19:00-20:30'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''19:00-20:30'''
| align="center" width="13.5%" | '''Open lab'''
+
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]''' <br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab/lab.html PAML lab]) <br/>([http://awarnach.mathstat.dal.ca/~joeb/PAML_lab/resources/pamlDEMO_slides.pdf Lab slides])
| align="center" width="13.5%" style="background:#F2E0CE" | '''Course dinner party'''<br/>Lobster Boil, MBL Club<br/>Starts at 5pm
+
| align="center" width="13.5%" style="background:#F2E0CE" | '''Course dinner party'''<br/>Lobster Boil, Terrace<br/>Starts at 7pm
 
| 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/2016/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%" | '''[[Deren Eaton|Eaton]]''' <br/>(pyrad and RADseq analysis)
+
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]'''   <br/>(Lecture: Multilocus phylogeography and phylogenetics)
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
+
| align="center" width="13.5%" | '''[[Ben Evans]]''' <br/> Insights into how "important things" evolve
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
|-
 
|-
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''20:30-22:00'''
 
| align="center" width="13.5%" height="30" style="background:#c8ccd1" | '''20:30-22:00'''
| align="center" width="13.5%" | '''Open lab'''
+
| align="center" width="13.5%" | '''[[Bielawski|Bielawski]]'''     <br/>([https://molevol.mbl.edu/index.php/PAML_notes Additional resources]) <br/>([https://bitbucket.org/EvoWorks/protocol-inference-of-episodic-selection/downloads/ Advanced lab])
 
| align="center" width="13.5%" style="background:#F2E0CE" |  '''Course dinner party'''
 
| align="center" width="13.5%" style="background:#F2E0CE" |  '''Course dinner party'''
 
| 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/2016/tutorial migrate tutorial])<br/>
+
| align="center" width="13.5%" | '''[[Peter Beerli|Beerli]]''' <br/>( [http://peterbeerli.com/workshops/mbl/2017/tutorial/ migrate tutorial])
| align="center" width="13.5%" | '''[[Deren Eaton|Eaton]]''' <br/>(pyrad and RADseq analysis)
+
| align="center" width="13.5%" | '''[[Scott Edwards|Edwards]]'''   <br/>(Lecture: Multilocus phylogeography and phylogenetics)
| align="center" width="13.5%" | '''[[Lacey Knowles|Knowles]]''' <br/>(Evolutionary applications of genomic data)
+
| align="center" width="13.5%" style="background:#F2FFE6" | '''Open discussions & Graduation ceremony''' <br/>
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
| align="center" width="13.5%" style="background:#DCDCDC" |
 
|-
 
|-
 
|}
 
|}
 
<br/>
 
<br/>

Latest revision as of 11:33, 27 July 2018

How to prepare for the Workshop on Molecular Evolution

Please download and install the software listed here: Downloads

Opening Activities: 6 PM Thursday, July 19th, Reception in the Meigs Room in the Swope Building

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

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


Optional programming module:

Time: daily from 8am-8:45am
Location: room 263 Loeb building (2nd floor)
Instructor: Huelsenbeck
File:Programming.pdf

See also the optional programming module page.

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
(Intro. to Phylogenetics)
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
(Model-selection tutorial)(PAUP)
Huelsenbeck
(Why I like ML & Bayes)
17:00-19:00 Welcome reception starts at 6PM Dinner break
19:00-20:30 Welcome & opening reception
Swope Bldg.
Rachel Williams
(Intro computer lab)
McTavish
(Maximum likelihood tree searching)
Landis
(Lecture: Graphical Models & RevBayes)
20:30-22:00 Opening reception
Swope Bldg.
Rachel Williams
(Alignment lab)
McTavish
(Ascertainment bias & partition models)
Heath
(Lecture: Divergence time estimation)


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)
Landis
(Lab: Phylogenetics w/ RevBayes; slides)
(Room change:
Loeb, G70)
Holder
(Sci. ethics, tree testing, Open Tree of Life)
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)
Landis
(Lab: Phylogenetics w/ RevBayes; lab1, lab2)
(Room change:
Loeb, G70)
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)
Heath
(Lab: Divergence time estimation w/ RevBayes)
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)
Heath
(Lab: Divergence time estimation w/ RevBayes)
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 7pm
Beerli
( migrate tutorial)
Edwards
(Lecture: Multilocus phylogeography and phylogenetics)
Ben Evans
Insights into how "important things" evolve
20:30-22:00 Bielawski
(Additional resources)
(Advanced lab)
Course dinner party Beerli
( migrate tutorial)
Edwards
(Lecture: Multilocus phylogeography and phylogenetics)
Open discussions & Graduation ceremony