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Author: MJWester1

MATLAB/examples/simplePairCorr.m

@@ -49,6 +49,11 @@
 %    *_ls_RC_PDF/CDF                  ROI combined localization L1+L2 seps.
 %    *_gmax_den1/2                    max(g(r)) vs L1/2 loc. density (#/nm^2)
 %    *_ROIs                           plot of the selected ROIs in each cell
+%
+% Output file naming conventions:
+%    analysis.mat                     analysis results by file # and ROI
+%    *_ROIs.txt                       [xmin, xmax, ymin, ymax] by ROI number
+%    *_stats.txt                      Pearson's and Manders' coefficients
 
 %% --- Set important parameters
 % Collect the set of files expressing each label together.

MATLAB/examples/simpleROIcluster.m

@@ -72,8 +72,7 @@
 % OriginLLvsUL = true says to use lower left origin coordinates rather than
 %    upper left origin coordinates in the ROI selection display.
 % If GaussIm is true, make OriginLLvsUL false for consistency.  The default is:
-% GaussIm = false and OriginLLvsUL = true.  Currently, GaussIm only works for
-% single labeled molecules.
+% GaussIm = false and OriginLLvsUL = true.
 %RT.GaussIm = true;    RT.OriginLLvsUL = false;
 RT.GaussIm = false;   RT.OriginLLvsUL = true;
 RT.SRzoom = 4;              % zoom factor for gaussianImage