(2025) Introductory Spatial ‘Omics Analysis – Visium HD: Virtual
Date: 20 - 21 February 2025
This introductory course will focus on developing experiments for the Visium HD and the subsequent data analysis. The workshop aims to provide an understanding of the technology and provide valuable advice on how to prepare for your Visium HD experiment, including critical tissue preparation tips. Following these, the workshop will move along a series of necessary fundamental computational steps required in transforming your raw dataset into a biologically meaningful format. Finally, the workshop will end with analysis steps that will guide the participant on how to perform biological queries following the computational process. This workshop is offered both in-person and virtually. Please note that virtual participants will be supported by dedicated virtual TAs but may not have the same learning experience as in-person participants. Priority will be given to brain researchers located in Canada. ABOUT THIS COLLABORATION Funding for this workshop is provided by the Brain Single Cell Initiative. The Brain Single Cell Initiative has been made possible by the Canada Brain Research Fund (CBRF), an innovative arrangement between the Government of Canada (through Health Canada) and Brain Canada Foundation, and University Health Network. The Brain Single Cell Initiative is making single-cell and spatial genomics technology, along with scientific and bioinformatics support, available to brain researchers through the Princess Margaret Genomics Centre. Panoramics – A Vision is a pan-Canadian working cluster for spatial and single cell multi-omics analyses.
Country: Virtual
Prerequisites:
Basic familiarity with Unix commands and the Python scripting language. This workshop requires participants to complete pre-workshop tasks and readings. You will also require your own laptop computer. Minimum requirements: 1024×768 screen resolution, 1.5GHz CPU, 8GB RAM, 10GB free disk space, recent versions of Windows, Mac OS X or Linux (Most computers purchased in the past 3-4 years likely meet these requirements).
Learning objectives:
By the end, participants will be able to: Prepare samples for Visium HD processing by a core facility Perform basic pre-processing and computational transformations required for analysis Understand the theory behind spatial and non-spatial clustering methods and their applications Carry out differential expression analysis statistical testing Integrate/complement images with gene expression datasets Understand the limitations of bins and scales on analysis
Capacity: 40
Event types:
- Workshops and courses
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