Hi,

The "Region pixels" is the no. of pixels in your segmentations that corresponds to the region-of-interest. So if you know the pixel scale of the segmentations (area represented by each pixel in your segmentation, e.g. 10mm2 per pixel), you can enter this no. (10) and the unit (mm2) in Nutil, and the areas will be automatically calculated and reported in the "region area" field. It is usually possible to obtain the pixel scale of the original images from the microscope scanner. Assuming you downscaled the images before segmentating them, you'll have to calculate the correct pixel scale of the downscaled images before you can use the number in Nutil. 

Good luck,

Sharon

Originally posted by busra:

Nutil Region Area

Hi, Sharon,
First of all, thank you and your team for this wonderful workflow. My PhD thesis is a morphometric study on rats with Alzheimer's disease and using QUINT workflow in my study was very useful. However, I would like to ask you about a few things that are on my mind. Can I accept the Reference Region Area information given in the Nutil output report as a morphometric area? My goal is to get volumetric results from this data. For this, I will use the stereology method in my study, but I wonder if this is correct.  For example, if we talk according to the table below; can I consider the cortex area as 4772968 pixels? Also, even if I convert units from pixels to mm² during nutil quantifier, the result is still 4772968. What should I do in this case?

Region name    Region pixels    Region area    Area unit
Cortex    4772968    4.772.967.600.046    pixels
Fibretracts    1755011    1.755.010.611.384    pixels
Hippo    1031737    1.031.736.514.834    pixels
Olfactory    3649652    3.649.652.441.756    pixels

Best regards..