Expanded MCQUANT for GLCM and associated graycoprops:
[x] Included glcm calculation per cell label and associated graycoprops calculation in the MaskChannel function
[x] made use of the --intensity_props argument to determine, whether a user-specified a glcm feature
[x] included CLI inputs for angle and distance to calculate the GLCM. Currently limited to 1 angle and 1 distance (otherwise it overblows the CSV result table). The default is set to angle 0 and distance 1 pixel. Included these CLI options in all functions in the main script. Can be changed if necessary, as GLCM features are normally calculated for various angles.
[x] Added qptiff as accepted bioformat. For future maybe adding ome zarr/ngff should be considered
[x] Added intensity standard deviation (intensity_std) as additional option
[x] Adjusted the README, including the script call that was not updated
[x] Successfully tested on exemplar001 (using ome.tif and segmentation mask)
Expanded MCQUANT for GLCM and associated graycoprops: