17-21 June 2019
This course will introduce biologists to the main bioinformatic tools for the analysis of Next Generation Sequencing (NGS) data from ancient samples. Through a series of theoretical and practical hands-on sessions, the main goal of this course is to provide a clear understanding of the most common bioinformatic methods adopted in a wide range of paleogenomics projects (from metagenomic screening of ancient samples, to NGS reads mapping and phylogenetic tree reconstruction). Particular attention will be given to quality control, DNA damage assessment and variants calling. A basic introduction to NGS platforms and the main file formats used in most common bioinformatics pipelines will be provided. Each day will consist of a mix of introductory lectures on the theoretical background of the programs that will be used, followed by hands-on exercises using command line tools performed by the participants under guided supervision.
The course is aimed primarily at researchers (MSc and PhD students, postdoctoral fellows, engineers) interested in learning the different steps from NGS raw data analysis to phylogenetic tree reconstruction in archaeological samples. The hands-on sessions are targeted to beginners and more advanced users alike. The practical sessions will cover the most common pipelines adopted in paleogenomics, and can be applied to a wide range of projects, from metagenomics to genome resequencing. Attendees should have a background in biology and some familiarity with genomic data.
The course material will be delivered over 5 days, in 10 half-day sessions. These lessons will build off of one another, and feature a mix of lecture and in-class exercises.
Botanisches Museum, Königin-Luise-Straße 6-8, Berlin
- Presentation and course overview.
- Introduction to NGS and ancient DNA: the paleogenomic era
- Theoretical background on metagenomic analysis.
- Introduction to Unix: basic and advanced command line concepts.
- Metagenomic screening of ancient samples (e.g. Metaphlan, Kraken, Krona)
Course material and refreshments
Course material, refreshments, lunch and accommodation
480 € (VAT included)
795 € (VAT included)
Application deadline is: April 14th, 2019.
Please click HERE to get all the information about our packages.
> 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.