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DESCRIPTION:   IMPORTANT DATES for this Course\n   Deadline for appli
 cations: Mar 6th 2017 (New)\n   Course date: March 13th -  March 17th 2
 017\nCandidates with adequate profile will be accepted in the next 72 hour
 s after the application until we reach 20 participants.\nCourse descriptio
 n\nGenetic and genomic data are increasingly used by ecologists and evolut
 ionary biologists in general. It has thus become important for many biolog
 ists with different levels of experience to produce and analyse genetic (a
 nd genomic) data. In this course we will take a practical approach to the 
 analysis of genetic and genomic data\, but we will also provide some of th
 e theoretical background required to understand the outputs of the softwar
 e used. This course will be organised so as to mix lectures where importan
 t notions are introduced with practicals where freely available software w
 ill be used. While this will not be the focus of the course\, we will also
  introduce and discuss genealogical (coalescent-based) simulation methods 
 and those based on forward-in-time simulations. Altogether this will allow
  to discuss the potentialities and limitations of the tools available to t
 he community.\nIn this five-day course we will introduce the main concepts
  that underlie many of the models that are frequently used in population g
 enetics. We will focus on the importance of demographic history (e.g. effe
 ctive sizes and migration patterns) in shaping genetic data. We will go th
 rough the basic notions that are central to population genetics\, insistin
 g particularly on the statistics used to measure genetic diversity and pop
 ulation differentiation. The course will also cover a short introduction t
 o coalescent theory\, Bayesian inference in population genetics and data s
 imulation. We will also introduce two methods that have been recently deve
 loped to analyse genomic data. The PSMC of Li and Durbin reconstructs the 
 demographic history of a species or population with the genome of a single
  individual. The Rehh package is an R implementation of the Extended Haplo
 type Homozygosity (EHH) test for selective sweeps and looks for signals of
  selection based on the analysis of genomic regions.\nMost theory will be 
 put into practice in practical sessions\, analyzing real and/or simulated 
 datasets. In these sessions\, we will look at measures of genetic diversit
 y and differentiation and use methods to infer demographic history. We wil
 l learn how to perform coalescent simulations of genetic/genomic data (usi
 ng SPAms and ms). We will also show how to simulated data for PSMC analyse
 s. This will allow users to compare the PSMC obtained with real data to th
 ose obtained for the models they used. We will also look at how habitat fr
 agmentation can be simulated using an in-house program. Some exercises wil
 l make use of R scripts (R being a freely available statistical program). 
 Basic R knowledge is a pre-requisite but we will provide a short introduct
 ion to R. The R statistical package is a very powerful tool to analyse dat
 a outputs from many population genetics software\, and can also be used to
  simulate genetic data under simple demographic scenarios. \nCourse Pre-re
 quisites\nBasic molecular population genetics and molecular ecology. Basic
  R knowldedge. Basic knowledge of genomic data.
LOCATION:Instituto Gulbenkian de Ciência
SUMMARY:PGDH17 Population Genetics and Demographic History: model-based app
 roaches
URL;VALUE=URI:http://gtpb.igc.gulbenkian.pt/bicourses/PGDH17/
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