Fundamentals of populations genetics using R (FOPG01) https://www.prstatistics.com/course/fundamentals-of-populations-genetics-using-r-fopg01/
This is a ‘LIVE COURSE’ – the instructor will be delivering lectures and coaching attendees through the accompanying computer practical’s via video link, a good internet connection is essential. TIME ZONE – Western European Summer Time – however all sessions will be recorded and made available allowing attendees from different time zones to follow a day behind with an additional 1/2 days support after the official course finish date (please email oliverhoo...@prstatistics.com for full details or to discuss how we can accommodate you). Course Overview: The aim of the course is to introduce you to the fundamentals of population genetics theory, through quantitative visualizations of the dynamic of genetic elements within and between populations, using the R statistical programming language. We will be using a mixture of lectures, exercises, and case studies to increase the intuitive understanding of population genetics concepts and facilitate conceptual experimentation and visualization in R. By the end of the course participants should: 1. Understand the fundamentals of population genetics theory 2. Be able to use R to visualize data sets and write simple functions 3. Know how to import different data types into and out of R 4. Create simple population genetics simulations in R 5. Understand essential summary statistics from the population genetics literature (e.g. FST , D, pi, theta, etc.) 6. Be able to generate publication quality figures from population genetic data This is a ‘LIVE COURSE’ – the instructor will be delivering lectures and coaching attendees through the accompanying computer practical’s via video link, a good internet connection is essential. TIME ZONE – Western European Summer Time – however all sessions will be recorded and made available allowing attendees from different time zones to follow a day behind with an additional 1/2 days support after the official course finish date (please email oliverhoo...@prstatistics.com for full details or to discuss how we can accommodate you). Course Programme Monday 30th November – Classes from 09:30 to 13:30 1) Introduction to the course 2) Learning through programming 3) Key concepts related to population genetic data Wednesday 2nd December – Classes from 09:30 to 13:30 1) Retrieving open data from web sources 2) Using R packages for data retrieva 3) Generating and switching between R data classes 4) Reading different types of genetic data into R 5) Understanding R’s statistical toolbox Friday 4th December – Classes from 09:30 to 13:30 1) Introduction to the Hardy-Weinberg equilibrium assumption 2) Allele frequencies vs genotype frequencies 3) Probability and likelihood in population genetics Monday 7th – Classes from 09:30 to 13:30 1) Generating basic simulations in R 2) Reading and writing data files in R 3) Introduction to algorithms 4) Expectation-maximization of likelihood Wednesday 9th – Classes from 09:30 to 13:30 1) Interpreting violations of expectations 2) More complex genetic data (multiple loci) 3) Fitness and selection on genetic elements Friday 11th – Classes from 09:30 to 13:30 1) Neutral variation and genetic drift 2) Population assignment and comparison 3) 2D and 3D visualization in R -- Oliver Hooker PhD. PR statistics 2020 publications; Parallelism in eco-morphology and gene expression despite variable evolutionary and genomic backgrounds in a Holarctic fish. PLOS GENETICS (2020). IN PRESS www.PRstatistics.com facebook.com/PRstatistics/ twitter.com/PRstatistics 53 Morrison Street Glasgow G5 8LB +44 (0) 7966500340 +44 (0) 7966500340 _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
