Actually, there is a guide on imagej.net:

http://imagej.net/Segmentation

Thanks Sir..Peter Schindler  for your quick respose..actually I have a SEM image which is porous..and i want to find average area of pores..and then want to make a histogram...so please guide me how it can be done...

Dear Bulkesh Siwach

You can follow these steps to measure pore size or pores area of a SEM image by imagej software:

1: Open file

2: Cutting the image: you have to remove the SEM information bar in the lower part of the picture: Use  rectangle that includes just the SEM image. Then use menu image-  click on crop

3: Convert image to bmp or tiff format.

4: Introduce scale to software, not image: Click menu Analyze, set scale. It is so easy. more information you can fiind on internet.

5: Binarisation: The image has to be binarized using thresholding procedure. This step is very important, so be careful. use menu image, click adjust then thershold. When the proper threshold is selected just the pores should be colorful.

6: After proper thersholding, use the menu Analyze, click on measure. A new tab (table) will be emerged. you need to know the Feret's diameter of pores.  click Results menu on new tab, then click distribution. a new windows will be emerged. then select Feret diameter or area or every parameter as you want.

7: A new window will be emerged showing pore size distribution.

don't hesitate to contact me if you need more information.

Warm regards

Ahmad.

Thanks..for these steps..Ahmad Zalooli Sir. I am trying..if I need help i will definitely contact you. Thank you so much ..

Regards

Hi Ahmad, 

your response has been very helpful so far. But when it comes to setting the thresholding, firstly it says the image needs to be in grayscale. Also which optiuon should be selectd. I know you said its an important step so I want to ensure its done right.

Ahmad Zalooli Thank you very much for the step-by-step procedure for calculating the pore size distribution using ImageJ. I've a similar type of problem, where I need to get pore size distribution from X-ray tomography slices (~500 images). Could you help me to carry out the analysis in ImageJ of all 2D images together?

Dear Gurusideswar Sivanarutchelvan

ImageJ software can easily applied to measure pore size distribution and porosity of materials in 2D images. There are several plugins such as JPor or BonJ and... to measure porosity. I dont know if there is plugins for determination of pore size distribution or not. Although manual thresholding takes more time, it is more relaible.

Edgar Berrezueta

Dear Edgar

Hi. Do you know if there is any plugins for authomatic theresholding of 2D X-ray tomography slices measuring pore size distribition?

Thanks again Ahmad Zalooli for the reply. I tried to import 2D X-ray images (500+) using an option called 'Image Sequence...' in ImageJ software. I could easily see all the images in a sequential manner but unfortunately I'm unable to do the automatic thresholding at one stroke as each image has different pore distribution. Kindly provide your inputs.

Hi Gurusideswar Sivanarutchelvan

What is your porous media?

@se kh.

It's a cement matrix with fine aggregates.

Hi Gurusideswar Sivanarutchelvan

I have written a code that measures mean pore diameter in my porous media(nanofibrous web). I think it will be useful for you also

Hi Ahmad Zalooli ! How thresholding can be done in image j.. Is there any way to do this automatically?

Hi Brajesh Singh,

To threshold multiple images automatically, you can use macros and batch processing : http://imagej.net/Batch_Processing

I hope that answers your question.

Thanks Luke Griffiths ! I will try out this.

Dear Brajesh Singh

There are several plugins such as JPor, BonJ, diamaterJ and so on. Using these plugins you are able to do thresholding automatically. The application of these plugins depends on the type of image. For exampe, using jpor you can threshold blue dye-impregnated thin sections for determination of porosity. My experience is that a careful manual operationis is more reliable.

Ahmad Zalooli Since you saying manual threshold setting is very important, then How i can say that at this threshold setting, got correct pore size and porosity of SEM image.

Suman Budhathoki

I think you have to do set threshold again, for lower magnification.

Make sure you first see the grain boundaries in your FESEM images, then do color contrast and thresholding carefully until you eliminate the background information, without losing the pore information.

Ahmad Zalooli ,can imagej software measure dentin porosiy on images clicked under light microscope,instead of SEM?

Dear Sandhya Tamgadge

Imagej software separates and counts the areas with different colors in the image. To measure dentin porosiy via Imagej, all pores should have the same color (The same RGB). Color images contain three RGB components, which represent the intensity of red, green and blue color. The values of RGB for each component are in the interval of 0 till 255 in 8 bit coding. Image processing techniques can be used for determination of porosity or pore area on images clicked under light microscope.

Is there any standard procedure/method for pore size measurement by using SEM...I mean any ASTM of other standard.

@ Muhammad Irfan , is there a way to measure total porosity seen in a pic of T.S of dentinal tubules ,in a click using image J. There is no specific method mentioned for dentinal tubules. It is mentioned for particle size

@ Muhammad Irfan , is there a way to measure total porosity seen in a pic of T.S of dentinal tubules ,in a click using image J. There is no specific method mentioned for dentinal tubules. It is mentioned for particle size

Ahmad Zalooli, Thanks for sharing the point by point steps. You mentioned knowing the Feret's diameter in step 6. I am just curious about the best way to measure this on the SEM/TEM image. Besides, will these parameters be inputted into image J for each pore?

Regards.

Please see the methods described in my article (Article A comprehensive study on geometric, topological and fractal ...

(you need to know the Feret's diameter) of pores.

how we can know this,

How we can determine Contact angle and the interface curvature between air and water using Image j software ???

Ahmad Zalooli

Thanks for your guidance. I've all my pores colored in red, but when I measured it just show only on row. How to fix it?