IMread issue with image stack

Hello,

I am trying to use imread to make matlab arrays of the gray values of an image of mine (stack of tif files). When I try to display a select tiff file in the stack (by using image(image_temp{1,image_number}) ), all I get is a yellow screen. When I try to look over the array of my imread for a select picture whose gray value for a coordinate that I have determined, the values do not match up as well. I was wondering if anyone had advice on this matter.

A side note, when I output the image for values that have a particular threshold value, it appears that the image is rotated 90 degrees to the left, which is not coded. Ultimately, this is what I am seeking to correct while also having the image coordinates match the matlab coordinates.

So to show what code I am using: Make array of the images

for i = 1:total_stacks:total_images
  ff = ff+1;
  % un-comment to see which frame is being processed
  % horzcat('Processing frame # ',num2str(ff))
  temp_image = imread(image_name,i+(stack_of_interest-1));
  output{ff} = temp_image;
end

Then the output can read:

disp(image_temp{1,36}(729,486)); %%returns some gray value there, not accurate when comparing to actual image on ImageJ