Spatial Transcriptomic Data Analysis & Software

Dna Data

Spatial Transcriptomic Data Analysis & Software

Tuesday 02/27/2024

8:00 a.m. to 12:00 p.m. - Light continental breakfast provided

Sprague Hall, Room 105

Genomics Research and Technology Hub (GRT Hub) Workshop

Required: Personal laptop (Mac or Windows) and HPC3 account

Instructors: Jenny Wu, PhD and Ivan Chang, PhD

This workshop introduces data analysis workflow with both sequencing and imaging based spatial transcriptomics platforms, using 10x Visium and Xenium as examples. The topics included an overview of data quality control, preprocessing and visualization, cellular segmentation etc. with 10x proprietary software and state of the art Open-source software. A guided tour was provided on how to run the latest visualization and data exploration tools to support spatial transcriptomics via both the command line and the Jupyterhub of HPC3.