Adaptation Genomics


14-18 September 2020


Due to the COVID-19 outbreak, this course will be held online


Course Overview

This course provides an introduction to the study of the genomic basis of adaptation using population genomics approaches applied to the analysis of both sequence and structural genetic variation. The instructors will guide the participants from the handling of raw genomic data and data exploration (e.g., summary statistics and population structure) up to more advanced methods, including genotype-environment associations based on both sequence and structural variants. Through hands-on exercises, the course will teach basic bioinformatics skills and how to manipulate, visualize and interpret genomic data and patterns. Thanks to the combination of theoretical and conceptual lectures, the students should end the course with a good understanding of the possibilities and the challenges to study the genomics of adaptation using population genomic approaches, as well as the confidence to apply similar methods to their own research.


target audience and assumed background

 The course is aimed at graduate students and researchers who are interested in using genomic tools to investigate the genomic basis of adaptation. Participants should have some basic background in evolution and population genetics. Previous experience in UNIX-based command line and R is an advantage, and a short tutorial may be provided prior to the course for participants without previous experience. Hands-on exercises will be run in a Linux environment on remote servers and data analysis and visualisation will be run in R using RStudio.



teaching format

 The course will focus on the analysis of RAD-seq data with most methods applicable to the analysis of whole genome resequencing data as well. In 2020, this course will be delivered online and include 10 half-day sessions with a combination of lectures (live) and practical exercises (flexible schedule; see details below). Time schedule will be adjusted according to the timezone of the participants.  Discussions among participants and with the instructors on concepts and data analysis will be possible through video conferencing and a dedicated Google group.


Learning Outcomes

 1)       Handling genomic data from raw reads to genetic variants

 2)       Calculating basic population genetic statistics
 3)       Visualizing genetic population structure

 4)       Searching for signatures of selection in the genome

 5)     Accounting for putative structural variants

 6)       Understanding the potential and the limitations of different methods to study the genomic basis of adaptation



Monday - Introduction to adaptation genomics


Lectures: Population genomic approaches

Practical: Basic handling of genomic data - from raw data to variant calling






Dr. Anna Tigano

Teaching Assistant

Cost overview

Cancellation Policy:




> 30  days before the start date = 30% cancellation fee


< 30 days before the start date= No Refund.




Physalia-courses cannot be held responsible for any travel fees, accommodation or other expenses incurred to you as a result of the cancellation.