EP69 (EU/Asia Session): How to Work with CosMx Data on SpatialX?

✨ SCSE Club: How to work with CosMx data on SpatialX As spatial technologies continue to evolve, the ability to efficiently process and integrate high-plex datasets is essential for reproducible research. Join us for this session as we walk through the standard workflows for CosMx data within SpatialX. We will demonstrate how to handle multi-omic submissions and move from data preparation to interactive downstream analysis. Topics we will cover: Transcriptomics & Proteomics Submission: Managing dual-omic datasets. Sample Integration: Combining multiple samples into a unified study. Normalization Strategies: Best practices for data scaling and prep. Spatial Downstream Analysis: Interactive clustering and neighborhood discovery. 🗓️ Friday, March 13th, 2026 ⏰ 9 AM CET | 3 PM ICT | 5 PM JST 🔗 Register link: https://lnkd.in/gi7E9cNy Time stamps 0:00 Introduction 1:48 Submit CosMx Decoded Files 5:15 CosMx V1 vs CosMx V2 6:56 Upload to SpatialX 8:09 Submit CosMx RDS 10:35 Add image post-hoc 11:50 Image alignment 13:00 Submit CosMx Flat Files 14:38 Combine data 17:30 Batch correction 20:03 Normalization methods 24:37 Cell type prediction 28:12 Distance query & Neighborhood analysis 29:55 Cell-cell communication 30:31 Region segmentation 31:54 CosMx transcriptomics & proteomics 34:53 Resources