Single cell RNAseq analysis in R
Analysis and interpretation of single cell RNAseq (scRNAseq) data requires dedicated workflows. In this hands-on workshop we will show you how to perform single cell RNAseq analysis using Seurat, Harmony and Single R – R packages for QC, analysis, and exploration of single-cell RNAseq data.
We will discuss the ‘why’ behind each step and cover reading in the count data, quality control, filtering, normalisation, clustering, UMAP layout and identification of cluster markers. We will also explore various ways of visualising single cell expression data.
Learning outcomes:
- By the end of the workshop you should be able to:
- Load gene counts into a Seurat format
- Perform QC and select cells for further analysis
- Filter and normalise scRNAseq data
- Cluster cells and identify cluster markers
- Visualise scRNAseq expression data
- Perform differential expression analysis
Lead Trainers:
Dr Sarah Williams, Senior Bioinformatician, QCIF Digital Research.
Fred Jaya, Senior Bioinformatician (Australian BioCommons), Sydney Informatics Hub, University of Sydney.
Date/Time: 28 – 29 July 2026, 1 – 4:30 pm AEST/ 12:30 – 4pm ACST/ 11am – 2:30 pm AWST
Location: Online
Format:
This online workshop will take place over two half-day sessions. You must attend both sessions. Expert trainers will guide you through each of the topics and provide hands-on activities to help you put your new skills into action.
Who the workshop is for:
This workshop is for Australian researchers in academia, government or industry who are or will work with scRNAseq data as part of their projects. You must be associated with an Australian organisation for your application to be considered.
Prerequisites
This workshop requires some basic familiarity with R.
While you don’t need to be an expert, you should be able to work with tables of data, know how to load an R library and make basic plots (ideally with ggplot2).
You should also have basic knowledge of single cell RNA sequencing technology.
How to apply:
This workshop is free but participation is subject to application with selection.
Applications close at 11:59 pm AEST, 13 July 2026.
Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful).
