NGS - Quality control, Alignment, Visualisation

Date 17 - 19 May 2021
Speaker(s) Geert van Geest
ECTS 0.75
Fees *academic: 180 CHF   -   for-profit: 900 CHF
Cancellation deadline 4 May 2021
City Bern
*academic fee includes non for-profit organisations as well as unemployed participants at the time of application.

This course will take place in Bern with rules complying to COVID situation (distances and hygiene). Should the Covid-19 situation in April 2021 be such that physical meetings are not recommended by the Swiss Government, we will switch to a virtual event on the same date, restricted to registered participants only

Please check when registration open that you are not coming from states and areas with an increased risk of infection as applications from these countries will not be accepted for courses held in classrooms.

Overview

Next Generation Sequencing (NGS) methods have had a large impact on many biological fields due to a very rapid decrease in cost and throughput. It often results in hundreds of gigabytes of data. This can make the downstream analysis challenging and requires bioinformatics skills.

In this module, we will introduce the most used sequencing technologies and explain their concepts. Using different datasets, we will practice quality control, alignment of reads to a reference genome and visualize the output.

Audience

This course is intended for life scientists who are already dealing with NGS data and would like to be able to start analysing them.

Learning Objectives

At the end of the course participants should be able to:

  • understand the basics of the different NGS technologies
  • perform quality control for better downstream analysis
  • align reads to a reference genome
  • visualize the output.

Prerequisites

Knowledge / competencies:

Participants should have a basic understanding of working with the command line on UNIX-based systems like Linux or Mac. If you do not feel comfortable with UNIX commands, please take our UNIX fundamentals e-learning module or attend one of the "First Steps with UNIX in Life Sciences" that we propose in 2021.

Technical:

Participants should bring their own computers. Software requirements will be communicated before the course.

Application

The registration fees for academics are 180 CHF and 900 CHF for for-profit companies.

You will be informed by email of your registration confirmation. Upon reception of the confirmation email, participants will be asked to confirm attendance by paying the fees within 5 days.

Deadline for registration and free-of-charge cancellation is set to 4 May 2021. Cancellation after this date will not be reimbursed.

Please note that participation to SIB courses is subject to this and other general conditions, available here.

You will be informed by email of your registration confirmation.

Location & Time

More information on due time.

The course will start at 9:00 and end around 17:00. Precise information will be provided to the participants on due time.

Additional information

The course will be taught by Geert van Geest.

Coordination: Grégoire Rossier, SIB Training group.

We will recommend 0.75 ECTS credits for this course (given a passed exam at the end of the course).

You are welcome to register to the SIB courses mailing list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

Please note that participation in SIB courses is subject to our general conditions.

SIB abides by the ELIXIR Code of Conduct. Participants of SIB courses are also required to abide by the same code.

For more information, please contact training@sib.swiss.