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How to export tiles of large histology images in QuPath

Rebecca Senft With slide scanners and other automated, high-throughput microscopes becoming more and more common, it’s important to understand how to work with the large image files they produce. Whole slide file formats (e.g., .mrxs, .svslide, .svs, .vms) are often massive when uncompressed (>40 GB...

How to Normalize Cell Painting Data

Rebecca Senft Let’s talk about normalization: why we normalize data and how we choose a method for normalizing data in Cell Painting experiments. We’ll consider a theoretical example experiment including two plates, each with a different cell type (neurons and fibroblasts). Plates include similar...