I want to calculate the closest distance between multiple almost circular IHC particles.

Is this possible with macro to do in large scale?

I want to calculate the closest distance between multiple almost circular IHC particles.

Is this possible with macro to do in large scale?

If you know the coordinates of the centers of the particles, itâs pure geometry to do that.

A typical image and a list of the corresponding particle coordinates would be useful.

Regards

Herbie

Can you please elaborate?

@Praveen_kumar_R honestly how do you think someone can elaborate more than @anon96376101 as done without see any of your pictures and with a short description like your first post?

Emanuele

sir, I am Praveen, Just doing my Post graduation in MD Anatomy, from India. I am totally new to ImageJ. I found this forum yesterday only.

Hope i will get some help from here.

Thank you for your responses

Please post a *typical* uncompressed image (TIF- or PNG-format), otherwise we are unable to help.

Please describe *precisely* what you are looking for and, if necessary, use image annotations, drawings and the like.

Herbie

2 Likes

As Emanuele and I have written, there is little to no sense to make any statements without having seen a *typical* image.

Perhaps you can post an image from the literature that comes close to what you are going to achieve.

Better though is to make a pilot experiment (staining).

Regards

Herbie

from that image, I came up to here.

Is the correct? after this?

Thank you in advance

Yes, that looks nice!

Check âCentroidâ in âSet Measurementsâ.

Then âAnalyze Particlesâ lists the center co-ordinates (X, Y) of all particles.

Now you need to access these co-ordinates and compute all distances according to Pythagoras and finally select the smallest one. This is extensive search and you may guess that there are ways to minimize the effort of the extensive search.

There may be an Imagej-plugin that does the distance analyses. Perhaps someone else can point you in this direction. Otherwise, you can write an Imagej-macro that does what you need.

Here is what you need for macro-coding:

https://imagej.nih.gov/ij/developer/macro/macros.html

https://imagej.nih.gov/ij/developer/macro/functions.html

Regards

Herbie

2 Likes

Possibly these plugins could be worth looking into:

https://imagej.nih.gov/ij/plugins/graph/index.html

Or this one:

The plugin file can be downloaded from here

1 Like

Really thank you @anon96376101 and @Danielle_Z

I will let you know my progress and if I found any trouble tooâŚ

Thanks a lot

your ND - ImageJ plugin was really good, but i dont know how to measure Xstart and Ystart?

Consider also using this plugin, which i havenât tried yet, but i would choose for nearest neighbour analysis in imagej: https://icme.hpc.msstate.edu/mediawiki/index.php/Nearest_Neighbor_Distances_Calculation_with_ImageJ

It uses the results table to calculate nearest neighbour distances based on centroid positions.

Best,

Rob

2 Likes

Thanks a lot. it an simplest way to identify nearest distance.

The link to ânearest neighbour distances calculation with ImageJâ now seems to live at: http://doi.org/10.5334/jors.bn

I am trying to calculate nearest neighbor distances for nanoparticle clusters from TEM image. I think the plugin you mentioned should be useful, but the link does not work. Can you please post the correct link or let me know where I can find this plugin?

Dear Praveen Kumar

I need to determine nearest neighbor distance from nanoparticle clusters in TEM image. I am guessing you have successfully used the ND plugin for your work. Can you please guide me on where I can download this from and how to use it?

Thanks,