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Update at_colocalization_neighbors.m #21

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Update at_colocalization_neighbors.m #21

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25 changes: 22 additions & 3 deletions at_colocalization/at_colocalization_editors/at_colocalization_neighbors.m
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Original file line number Diff line number Diff line change
Expand Up @@ -57,8 +57,27 @@
colocalization_data.parameters.roi_set_1 = parent;
end;

colocalization_data.parameters.threshold = parameters.threshold;
colocalization_data.overlap_thresh = colocalization_data.overlap_ab >= parameters.threshold;
[I,J] = find(colocalization_data.overlap_thresh>0);
multi_count = [];

all_cla = [I,J];
for i = 1:max(I)
[a,b] = find(I == i);
if numel(a) >= parameters.number_neighbors
multi_count = [multi_count numel(a)];
end
end
figure
histogram(multi_count)

[C,ia,ic] = unique(all_cla(:,1),'rows');
for i = 1:length(ia)
for j = 1:length(all_cla)
if ia(i) ~= j
colocalization_data.overlap_thresh(:,j) = 0;
end
end
end

overlapped_objects = sum(colocalization_data.overlap_thresh(:));

Expand All @@ -69,7 +88,7 @@

h = gethistory(atd,'CLAs',input_itemname),
h(end+1) = struct('parent',input_itemname,'operation','at_colocalization_neighbors','parameters',parameters,...
'description',['Rethresholded with new threshold ' num2str(parameters.threshold) '. Found ' int2str(overlapped_objects) ' CLs.' ]);
'description',['Rethresholded with new threshold ' num2str(parameters.number_neighbors) '. Found ' int2str(overlapped_objects) ' CLs.' ]);
sethistory(atd,'CLAs',output_itemname,h);

str2text([getpathname(atd) filesep 'CLAs' filesep output_itemname filesep 'parent.txt'], input_itemname);
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