How to take area measurements of cells using ImageJ

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Category:

Science & Technology

Tags:

• ImageJ
• Image Processing
• fibroblast
• Biomedical Engineering
• Stony Brook University
• fluorescence microscopy
• cell
• area
• measurement
• actin filaments
• phalloidin

[qcthegreat]

@thurayae use the wand tool to select the area, if it only selects the red color, then reverse the selection or use (total area - selected area).

[thurayae]

@qcthegreat i need to measure area,fibrosis area,it's liver tissue stained with masson trichrome, the area has blue color and the rest of the tissue has red one

please help me if you can...

[qcthegreat]

@abhinavsharma404 i don't know the theory behind the threshold, but basically you should try getting the outline of your cells as much as possible while excluding as much background as possible. I think you can set the threshold, but before doing so, you might need to normalize your images first, I believe every image you take has different brightness/contrast, etc. That type of task may require writing a MATLAB program.

[abhinavsharma404]

@qcthegreat So, what's the exact purpose of setting the threshold, and what should I be aiming for when I'm setting it? Apparently, I didn't get it right the first time. Should I try and set the threshold so that it outlines only the shape of the cells I'm trying to record the mean of? Additionally, do you know if there's a way to keep the threshold constant for analyzing multiple images of cells at different time intervals? (My mentor told me to keep the threshold constant for all the images).

[qcthegreat]

@abhinavsharma404 Select the first one. Then hold the Shift button on the keyboard, and select the last one. This shortcut works on all other programs too.

[abhinavsharma404]

@qcthegreat Thanks, I used the wand tool as you suggested. On the last step, how did you select all the entries from the ROI manager in order to get the measurements all at once?

[qcthegreat]

@abhinavsharma404 it might be a little tricky, if the size of pores are much smaller than that of your cells, i don't think using wand tool could be a problem, since you only introduce a small error. If the pores are big, and they can not be filtered out using threshold, you may have to manually trace out the area then take measurement.

[abhinavsharma404]

Hey, I need some help with Image J as well. I need to measure the mean and standard deviation of tumor cells. The image I have contains the tumor cells, as well as some pores from the filter that the tumor cells were placed on for microscopic analysis. How would I go about isolating the tumor cells from these small pores on Image J, so I can get the values I need from the tumor cells? Thanks for any help! (I tried to use the thresholding feature, but I'm not sure if I'm doing it right)

[qcthegreat]

@mariona89 I think the resolution of your image is the total number of pixels. For example, a picture of 800X600 has 480000 pixels. So to get the % of a picture, you just get the area of interest and divide it by the resolution of your image.

[mariona89]

Hi! I need some help! I need to do the % of a picture, i want selections diferent things and i want calculate what % have this objects in compare with all picture. Sorry for my english! Thank you very much!!