I don't know what you want. If you want Otsu threshold, use graythresh help graythresh
GRAYTHRESH Global image threshold using Otsu's method.
LEVEL = GRAYTHRESH(I) computes a global threshold (LEVEL) that can be
used to convert an intensity image to a binary image with IMBINARIZE.
LEVEL is a normalized intensity value that lies in the range [0, 1].
GRAYTHRESH uses Otsu's method, which chooses the threshold to minimize
the intraclass variance of the thresholded black and white pixels.
[LEVEL, EM] = GRAYTHRESH(I) returns effectiveness metric, EM, as the
second output argument. It indicates the effectiveness of thresholding
of the input image and it is in the range [0, 1]. The lower bound is
attainable only by images having a single gray level, and the upper
bound is attainable only by two-valued images.
Class Support
-------------
The input image I can be uint8, uint16, int16, single, or double, and it
must be nonsparse. LEVEL and EM are double scalars.
Example
-------
I = imread('coins.png');
level = graythresh(I);
BW = imbinarize(I,level);
figure, imshow(BW)
See also OTSUTHRESH, IMBINARIZE, IMQUANTIZE, MULTITHRESH, RGB2IND.
Documentation for graythresh
doc graythresh
It's a generic, general purpose demo of how to threshold an image to find blobs, and then measure things about the blobs, and extract certain blobs based on their areas or diameters.
If you have any more questions, then attach your data and code to read it in with the paperclip icon after you read this:
