Interface and Navigation
Learn how to navigate the Loupe Browser interface, redesigned in v7.0, with a Visium mouse brain dataset
Manual Fiducial Alignment
For fluorescence images, or when fiducial markers are obstructed or tissue boundaries are unclear. Input to Space Ranger
Manual Visium CytAssist Image Alignment
For shape or stain mismatches with the Visium CytAssist instrument. Input to Space Ranger
Mouse Brain Dataset Introduction
Get oriented with the Visium v1 mouse brain tutorial dataset
Evaluate Gene Markers
Evaluate the expression profiles of known gene markers of interest in the context of tissue morphology
Explore Spatial Clusters
Evaluating image data and clustering in the spatial view
Spatial Reclustering
Interactive filtering and reclustering workflow for spatial datasets
Sharing Results
Share a dataset with colleagues
Analyze Aggregated Data
Analyze multiple Visium libraries in a single Loupe file
Protein Expression and Thresholding
Learn how to use protein expression to filter and visualize your data
Spot Deconvolution
Learn how to perform reference-free spot deconvolution using a public mouse brain dataset