Visium HD Human Colorectal Cancer (FFPE) data release pathologist annotation

<p>10X Genomics released a spatial <a href="https://www.10xgenomics.com/datasets/visium-hd-cytassist-gene-expression-libraries-of-human-crc">transcriptomic dataset of human colorectal cancer collected on the Visium HD platform.&nbsp;</a></p> <p>The dataset was divided into different spatial domains based on the accompanying HE stain and the expression of characteristic marker genes.</p> <p>The pathologist's annotation was added with the help of Napari and the Spatialdata python package.</p> <p>Every .csv file contains the Visium HD bin barcode and annotation for the respective level of binning.</p> <p>In addition the HE image was segmented and bins were assigned to Nuclei for a pseudo single cell resolution, as described <a href="https://www.10xgenomics.com/analysis-guides/segmentation-visium-hd">here.</a></p> <p>This work was carried out for the <a href="https://github.com/SpatialHackathon/SpaceHack2023">SpaceHack2023 project </a>and the data shared here is licensed CC0.&nbsp;</p> <p>&nbsp;</p>