Workshop: An Introduction to NGS Applications & Analysis

July 6 to July 10

Learn the tools to analyze next generation sequence data on-line.

Dr Rafe Lyall (CPSBB, Bulgaria) and Prof Nicola Illing (UCT, South Africa) invite applications to attend two virtual workshops for students and experimental biologists who wish to develop their skills to analyze next generation sequencing data.

Workshop 2: An Introduction to NGS Applications & Analysis

  1. Who: Anyone interested in learning how to perform common NGS analyses
  2. What: Get an introduction to current NGS technologies and NGS analysis on and off the command line
  3. When: June 22 to June 26


This workshop will focus on NGS and the analysis of NGS-derived (short read) data. After introducing the different NGS technologies and applications, participants will run through a sample NGS analysis pipeline including quality assessment and preprocessing of NGS data, mapping sequencing reads, identification of differentially expressed transcripts, clustering and GO enrichment. It is assumed that those participating will be familiar with working on the command line (or have already attended the workshop Biology on the Command Line), but do not need to be familiar with NGS analysis specifically.

The workshop will be run remotely, online, over a 5-day period. Though there will be set topics and tasks each day, attendees will be able to sign in each day and work at their own pace to achieve the daily objectives. Slack will be used as a communication channel for questions and discussion, which is encouraged. Access to a personal Linux system is not a prerequisite: the workshop computing environment will consist of a remotely hosted JupyterHub server deployed by However, good internet access will be necessary.

We anticipate that the schedule will take between 4-8hrs daily to complete, depending on the level of computational/biological skills of the delegate. Optional worksheets will be made available each afternoon for delegates to consolidate what they have learnt in the morning. Workshop course notes and materials will remain available after the workshop has ended.

There is no charge for this workshop, which is being run as a part of the training activities of project RESIST.

Sign up for Workshop: An Introduction to NGS Applications & Analysis here, by June 29, 2020

These workshops are supported by funding from project RESIST, as well the University of Cape Town.
Rafe Lyall, Center for Plant Systems Biology and Biotechnology (CPSBB), Plovdiv, Bulgaria
Nicola Illing, Department of Molecular and Cell Biology, University of Cape Town, South Africa