• Event
  • Scientific training

Single-Cell RNAseq Training Course 2021

Providing an introduction to single-cell genomics, this course is for researchers who are new to bioinformatics and are planning a single-cell project.

Start date:

01 November 2021

End date:

04 November 2021


10h00 - 15h00


Online (via Zoom)



Registration deadline:

11 September 2021



About the event.

Please note registration for this course has now closed as the course has reached capacity. Please email training@earlham.ac.uk to register interest for future workshops or if places become available.

What is the course about?

This course provides an introduction to single-cell genomics for researchers who are new to bioinformatics.

The course will consist of a mixture of conceptual and methodological lectures and hands-on sessions (delivered via Galaxy), including best practice and tips as learned first-hand by Earlham Institute’s faculty. Participants will gain first-hand experience by learning how to assess data quality with the guidance of the faculty, troubleshoot small problems, and review the results. There will be plenty of opportunities to ask questions, and an optional group discussion with other participants and the course trainers.

This course will be delivered virtually, via Zoom.

What will I learn?

  • Understand the different data generated in scRNA-seq experiments and analyses
  • Learn how to assess data quality and troubleshoot problematic samples
  • Introduction and hands-on experience in available tools and resources for analysing and visualising single-cell data
  • Understanding and experience in generating differential expression analyses and identifying Copy Number Variations
  • Introduction to long read sequencing for identification of splice variants

Who is this training for?

This course is for researchers in the experimental planning stages of a project involving single-cell genomics. No prior experience of bioinformatics is expected and the approaches taught will use the web-based, user friendly interface, Galaxy. You will not be using the command line during the course. This course would be ideal for bench-based researchers who would like to make the first steps into bioinformatics.

Application process

Please complete the application form to apply for a place on the training course. We aim to respond to your application within 2 weeks, but will let you know if there is to be a delay. If successful and are offered a place for the course, you will be sent the registration form, including payment options.


Day 1 - 01 November 2021



10:00 - 11:30

Flash presentation from participants and trainers.

11:30 - 12:15

Introduction to single-cell genomics - from the lab to bioinformatics

12:15 - 13:15

Lunch break

13:15 - 13:45

Introduction to scRNA-seq data (presentation)

13:45 - 14:30

Library mapping and QC (presentation and walk through)

14:30 - 15:00

Galaxy registration and R installation checking

Day 2 - 02 November 2021



10:00 - 11:00

Introduction to Galaxy (presentation and tutorial)

11:00 - 11:15


11:15 - 12:15

Hands-on: Library mapping RNA (tutorial and tasks)

12:15 - 13:15

Lunch Break

13:15 - 14:15

Hands-on continued: Library mapping RNA

14:15 - 15:00

Hands-on: Data QC (filtering and visualisation)

Day 3 - 03 November 2021



10:00 - 11:00

Hands-on: Troubleshooting data sets

11:00 - 11:15


11:15 - 12:15

Single-cell case studies (presentations an Q&A)

12:15 - 13:15

Lunch break

13:15 - 15:00

Hands on: 10X Genomics data analysis (Seurat)

Day 4 - 04 November 2021



10:00 - 12:00

Presentation and Demonstration: Gene Expression

12:00 - 12:15

Final Wrap Up and Feedback

12:15 - 13:15

Lunch Break

13:15 - 15:00

Q&A/discussion with trainers and other delegates (optional)

Further information.

Please carefully review our standard online event booking terms and conditions prior to registering for this event. Completing an online registration and associated payment process will mean that you are bound by these terms and conditions.

Any supplemental terms or changes to these conditions on a per event basis will be included on this page. If you have any queries regarding our events or in relation to your booking, please contact us at training@earlham.ac.uk