Recent activity

Course on ASSEMBLY AND ANNOTATION OF GENOMES in Berlin

carlo pecoraro, December 15, 2018
 

Course: "Assembly and Annotation of genomes"

When: 11th to the 15th of February 2019

Where: Free University in Berlin (Germany)

Application deadline is: January 10th, 2019.

Instructor: Dr. Thomas D. Otto (University of Glasgow, UK; https://www.physalia-courses.org/instructors/t28/)

Assistant instructor: Mr. Maximilian Driller (Begendiv, Germany; http://bit.ly/2zcwmQT)

Overview

This course will introduce biologists and bioinformaticians to the concepts of de novo assembly and annotation. Different technologies, from Illumina, PacBio, Oxford Nanopoor and maybe 10X will be used mixed with different approaches like correction, HiC scaffolding to generate good draft assemblies. Particular attention will be given to the quality control of the assemblies and to the understanding how errors occur. Further, annotation tools using RNA-Seq data will be introduced. An outlook of potential analysis is given. In the end of the course the students should be able to understand what is needed to generate a good annotated genome.

Targeted Audience & Assumed Background

The course is aimed at researchers interested in learning more about genome assembly and annotation. It will include information useful for both the beginner and the more advanced user. We will start by introducing general concepts and then continue to step-by-step describe all major components of a genome assembly and annotation workflow, from raw data all the way to a final assembled and annotated genome. There will be a mix of lectures and hands-on practical exercises using command line Linux.

Attendees should have a background in biology. We will dedicate one session to some basic and advanced Linux concepts. Attendees should have also some familiarity with genomic data such as that arising from NGS sequencers.

Session content: https://www.physalia-courses.org/courses-workshops/course20/curriculum-20/

For more information about the course, please visit our website: https://www.physalia-courses.org/courses-workshops/course20/

Here is the full list of our courses and Workshops: https://www.physalia-courses.org/courses-workshops/

Best regards,

Carlo


Carlo Pecoraro, Ph.D

Physalia-courses DIRECTOR

info@physalia-courses.org

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