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The AnthroTree Workshop 2014 – Schedule of Events

Prior to Arrival
  • Prepare your data and identify and obtain a relevant phylogeny, and check with Charlie Nunn about your planned project (charles.nunn@duke.edu).    
  • Plan your travel, including ground transportation to and from the airport (going to Duke’s East Campus).  Inform Joel Bray of your travel plans (joel.bray@duke.edu).
  • Do background reading related to the presentations (on the wiki soon), and consider reading relevant chapters from The Comparative Approach in Evolutionary Anthropology and Biology (not required, but it should help set the stage for many of the presentations).
  • If you are staying in the Duke Residence Hall:  You will have a single room and will be provided with a linen kit, which includes sheets, towels, a pillow, and a blanket.  However, we were informed that the pillow is more like an airline pillow than what you are probably used to… you may want to pack one from home!  Also, you will need your own soap and shampoo (not provided in the residence hall). 


Wednesday May 28 – Arrival
For those staying in the dorms, arrive between 2:00 and 6:00 PM to check in. Go to Bell Tower Residence Hall at Duke University’s East Campus. Find Joel or another of our staff for your key. If you arrive late, go the dinner near the dorm to find one of us. If you are arriving early, you need to make specific arrangements with Joel ahead of time.
6:30 PM.  Dinner and Introduction to the Workshop  
We will have a catered buffet in a nearby building (Gilbert-Addoms Residence Hall). It will be authentic NC BBQ (with vegetarian and vegan options).
7:30 to 8:00 PM.  Charlie Nunn
Brief Overview of Workshop After dinner, Charlie will provide a general overview of the next four days.  
8:00 to 9:00 PM.  Robert Barton – “Brains Growing on the Tree of Life” 
Robert will give an introductory talk focusing on the questions one can ask about the evolutionary biology of brains using phylogenetic methods.


After 9:00 PM – Get Settled in the Dorms and Answer Prep. Questions!

You will have a series of multiple-choice or fill-in-the-blank questions to answer to prepare you for the next day’s topics, and the opportunity to ask questions in advance about the topic, method, or program to be covered (available on the wiki).  You will not be evaluated in any way based on your answers; the point of this is to make the instructor aware of what the audience knows, and to flag knowledge you should have after the presentation the next day.  The instructors will try to answer questions and misconceptions people have about a particular method or program.


Thursday May 29 – Getting to Know R, PGLS and More


Meeting Place:  NESCent (2024 W. Main Street
, Suite A200)


9:00 to 12:00  Roger Mundry – Introduction to R and Basic Phylogenetic Functions  
Roger will provide a basic introduction to R.  He will mainly focus on the basic concepts of R, such as data import and export, some standard statistical procedures, and plotting.  He will also demonstrate how to import and plot phylogenetic trees. If time allows, Roger will provide a very brief introduction to programming in R. Participants will also import their data and phylogenies into R and perform simple tasks, including plotting.  Instructors will float around to help individuals and to begin getting to know the data and questions that interest individual students.  Students who already know how to work with the basics of R should help other participants examine their data. 
12:00 to 1:30 Lunch 
Grab lunch in one of the restaurants nearby, or eat over your keyboard while working on your data. 
1:30 to ~4:30 Randi Griffin – PGLS, Phylogenetic Signal, and Likelihood

Randi will provide an introduction to comparative methods in R using caper and other packages.  She will cover the general topic of controlling for non-independence in comparative studies using PGLS and quantifying phylogenetic signal.  She will also give an introduction to likelihood.  Participants will work through a problem set using PGLS.
~4:30 to 5:00 Charlie Nunn – Phylogenetics and Cultural Evolution
Charlie will give an overview of phylogenetic approaches used in studies of cultural evolution, while also considering a few more general issues in comparative biology, such as controlling for phylogenetic uncertainty.
5:00 to 6:15 Various Instructors will Present Additional Perspectives
Including possibly:  studying correlated evolution of discrete characters, incorporating intraspecific variation, 10kTrees, phylogenetic logistic regression, and more.  Participants are also free to work with their data and complete exercises from earlier. 
6:30 Meet for Dinner at Blue Corn Café 
Meet at Blue Corn Café for Latin American food, just across the street from NESCent (716 Ninth St.).  The workshop will cover the cost of your meal.  Alcoholic drinks and dessert will be paid for individually.  Participants will walk back to the dorms after dinner.  It will be a fun dinner, seated at small tables and an opportunity to get to know new people – but let us know if you won’t attend so we can adjust the reservation.
After Dinner – work on your projects, finish problem sets, and answer prep. questions for next day!  
Friday May 30 – Comparative Analyses in R
7:30 AM  Fun Run! 
Back by popular demand!  And totally optional… meet before 7:30 in front of the dorm for a relaxed run over to Duke Gardens, West Campus, and the Al Buehler trail beyond, leaving at 7:30 sharp to make it back in time for a shower (your fellow participants will be grateful for that!).  Approximately 5-6 miles in total at an easy pace, but shorter loops will be pointed out, and a walking route will also be provided.
9:00 to 12:00 Adam Gordon – Independent Contrasts and Phylogenetic PCA 
We will meet back at NESCent.  Adam will cover phylogenetically independent contrasts both conceptually and methodologically, and he will cover phylogenetic PCA.  Students will work through a problem set that uses multiple packages in R and possibly PDAP in Mesquite.

12:00 to 1:30 Lunch  
Grab lunch in one of the restaurants on Ninth Street, or grab take-out and go back to NESCent to work on your problem sets or projects.  
1:30 to 4:30 Liam Revell – Ancestral State Estimation and Plotting  
Liam will present lectures on the threshold model & ancestral state estimation for discrete and continuous characters, together with worked examples from his phytools package and other R packages.  
4:30 to 6:00  Daily Wrap-up and Additional Perspectives  
 Charlie and others will briefly synthesize the day’s material and provide additional context, possibly demonstrating some additional programs or highlighting resources for further information.  After that, instructors may provide additional mini-presentations.  Participants are also free to work with their data and complete exercises from earlier. 
Dinner on your own! 
Head to Ninth St. with others for a bite to eat, or bring food back to the dorms or a picnic on East Campus. 
After Dinner – work on your projects, finish problem sets, and answer prep. questions! Spend the evening hanging out discussing comparative methods with your new colleagues, working through the problem sets, or running analyses related to your project.  And remember to answer the questions for the next day’s presentation! 
Saturday May 31 – Macroevolutionary Models and Your Projects
9:00 to 12:00 Graham Slater – Macroevolutionary Models  
Graham will cover exciting developments in fitting macroevolutionary models to comparative data.  He will focus on likelihood approaches, but will also cover Bayesian methods.  His problem set will make use of geiger and OUwie. 
12:00 to 1:30 Lunch 
Grab lunch in one of the restaurants on Ninth Street, or grab take-out and go back to NESCent to work on your problem sets or projects.  
1:30 to 6:00 Work on your projects!  
Instructors may give additional short presentations, as needed and depending on demand. Participants will have more focused time to work on their projects, with instructors circulating around to help as needed.  We may also have some short additional presentations to cover material not previously covered, or to clarify issues that arise. You will present your projects the next day!  We have an exciting new plan for presentations.  You will have a 20-minute slot to present your results in one of the 3 conference rooms at NESCent, equipped with computer projector and white board.  You decide how you want to present your project and results… PowerPoint, poster presented on the screen, Prezi, chalk talk, maybe even an original musical.  The main trick is to solicit the kind of feedback you want and to deal with flow of people in and out as they check out different presentations. Send your title, presentation type, one plot showing a statistical result, and one Twitter-type sentence description to Joel by 9:00 PM so that he can prepare a conference program!

Dinner on Ninth St. or nearby.
After Dinner – Also back by popular demand… a “hackathon” to work on projects and presentations for the next day!  We will meet in the dorms, with plenty of caffeinated beverages (and of course some beer) to keep the interactions going, and time for you to finalize your presentation for the next day.  Your title and single-image are due to Joel by 9:00 pm!  But feel free to continue working on your presentation until the wee hours of the night….  
Sunday June 1
9:00 to 12:00 Presentation of Research and Feedback  
As described above, we will have a dynamic presentation opportunity, with participants mingling between conference rooms to catch the talks of greatest interest.  Be prepared to learn from your new friends and colleagues, and to give them feedback.  And there will be great prizes in at least 4 categories!  
12:00 to 12:30 Final Wrap-up by Charlie and other instructors

12:30  Head out for a final lunch on Ninth Street!

Participants will depart after lunch.  Consider taking a tour of the Lemur Center if you have time before your flight!
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