For instructions on the various aspects of running and analyzing results from SPADE, read through the various Cytobank Support articles on SPADE.
SPADE stands for "Spanning-tree Progression Analysis of Density-normalized Events." SPADE clusters phenotypically-similar cells into a hierarchy that allows high-throughput, multidimensional analysis of heterogeneous samples. Read more about it in this publication:
Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE. Qiu P, et al. Nat Biotechnol (2011) 29(10):886-91
You can get started running a SPADE analysis on your data by navigating to your experiment, and clicking on "Advanced Analyses" on the experiment level navigation bar, then under the dropdown menu, choose SPADE.
