Intuitive, point-and-click graphical user interface
Aimed for users of all computational skill levels
Employment of multiple CPUs
Phenotyping
Multiaxial gating of numeric or categorical data, with optional batch normalization preprocessing
Multiple methods for phenotyping on pre-thresholded markers: “species”, “marker”, or “custom”
Spatial Analysis - Spatial Interaction Tool
“Patching” of slides into regions of interest
Multiple methods for calculating the degree of interaction between cell phenotypes: Poisson (radius), permutation (radius), or permutation (k-nearest neighbors)
Averaging of the interactions over whole slides or individual tissue types (tumor, stroma, necrosis, etc.)
Spatial Analysis - Neighborhood Profiler
UMAP decomposition of cell counts of different phenotypes at multiple distances from each cell
Clustering of the UMAP components to determine a discrete number of “neighborhood profiles” in the dataset
Exploratory visualizations to inspect and compare neighborhood makeups and to investigate potential correlations with other features or response variables in the dataset