To use Otsu's threshold in a for loop that goes through the entire stack of a TIFF image in MATLAB, you can follow these steps:

- Read the TIFF image stack using the imread and imfinfo functions.
- Create an empty output stack of the same dimensions and data type as the input stack.
- Loop through each frame of the input stack using a for loop.
- Apply Otsu's threshold to the current frame using the graythresh function.
- Convert the current frame to binary using the imbinarize function with the threshold obtained from Otsu's method.
- Store the binary output frame in the corresponding index of the output stack.

Here's the code that implements the above algorithm:

main.m560 chars19 lines

Note that the output_stack variable is of data type logical because the output of imbinarize is a binary image with pixel values of either 0 or 1.

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