2. Each stage
Background. A two-step habitat analysis is a chain of stages: extract voxel features, preprocess them, partition each tumour into supervoxels, pool the cohort, fit one habitat model, assign labels.
Purpose. Each page runs one stage on demo data so you can see its input, its output, and the parameters that matter.
These pages open the stage list of the
complete analysis.
Stage’s first argument is a label. Spec names the component.
extract — Extracting voxel intensities, Voxel features, Expression voxel features, Custom features, Voxel texture and GPU, Extracting a voxel texture, Clustering habitats from a derived map, Clustering habitats from a texture field.
preprocess — Feature preprocessing, Preprocessing features before clustering, Comparing habitat maps with and without preprocessing, Preprocessing voxel texture before clustering.
partition — Partitioning a ROI into supervoxels, Supervoxel feature extraction and acceleration.
assign — Assigning habitat labels.
Comparing habitat maps with and without preprocessing
