"I cannot find a way to hide the top dendodogram in the final plot."
% create clustergram
rng('default')
cg = clustergram(rand(10,10));
% Get figure handle
cgfig = findall(0,'type','figure', 'Tag', 'Clustergram');
% Get dendrogram axes
dendroAxRow = findall(cgfig,'Tag','DendroRowAxes');
dendroAxCol = findall(cgfig,'Tag','DendroColAxes');
% Set their visibility to off
set(dendroAxRow.Children, 'Visible', 'off')
set(dendroAxCol.Children, 'Visible', 'off')
% Alternatively, delete them:
% delete(dendroAxRow)
% delete(dendroAxCol)
Before and after:
