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+utils/imcrop_outliers.m

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+% IMCROP_OUTLIERS find the largest region of Mask and remove other 
+% the nonconnectd regions 
+% 
+% mask_new = imcrop_outliers(mask, number_of_objects)
+%
+% Inputs: 
+%  **mask                 binary 2D mask to be parsed 
+%  **number_of_objects    number of largest objects to be kept, default = 1
+%
+%  returns: 
+%  ++mask_new             mask after removing all smaller nonconnected objects
+
+%*-----------------------------------------------------------------------*
+%|                                                                       |
+%|  Except where otherwise noted, this work is licensed under a          |
+%|  Creative Commons Attribution-NonCommercial-ShareAlike 4.0            |
+%|  International (CC BY-NC-SA 4.0) license.                             |
+%|                                                                       |
+%|  Copyright (c) 2017 by Paul Scherrer Institute (http://www.psi.ch)    |
+%|                                                                       |
+%|       Author: CXS group, PSI                                          |
+%*-----------------------------------------------------------------------*
+% You may use this code with the following provisions:
+%
+% If the code is fully or partially redistributed, or rewritten in another
+%   computing language this notice should be included in the redistribution.
+%
+% If this code, or subfunctions or parts of it, is used for research in a 
+%   publication or if it is fully or partially rewritten for another 
+%   computing language the authors and institution should be acknowledged 
+%   in written form in the publication: “Data processing was carried out 
+%   using the “cSAXS matlab package” developed by the CXS group,
+%   Paul Scherrer Institut, Switzerland.” 
+%   Variations on the latter text can be incorporated upon discussion with 
+%   the CXS group if needed to more specifically reflect the use of the package 
+%   for the published work.
+%
+% A publication that focuses on describing features, or parameters, that
+%    are already existing in the code should be first discussed with the
+%    authors.
+%   
+% This code and subroutines are part of a continuous development, they 
+%    are provided “as they are” without guarantees or liability on part
+%    of PSI or the authors. It is the user responsibility to ensure its 
+%    proper use and the correctness of the results.
+
+
+
+
+function mask_new = imcrop_outliers(mask, number_of_objects)
+    if nargin == 1
+        number_of_objects = 1;
+    end
+
+    L0 = double(labelmatrix(bwconncomp(mask)));
+    [m,n] = hist(L0(L0>0),unique(L0(L0>0)));
+    [~,ind] = sort(m);
+    
+    mask_new = ismember(L0, n(ind(max(1,end - number_of_objects+1):end)));
+
+end