Today M.E. (Mysterious Explorer) send to me this.

Automatic Particle Sizing Using IMAGEJ

I have been on holidays for a while so it’s time to go back to work. Today I’m going to show an easy way of counting/measuring particles using a free software. The image analysis software is called ImageJ.


ImageJ can be downloaded and used for free. The first thing that appears once installed is the toolbox.


To load your image just File>Open. In my case, I’m going to use an SEM image where a few nanoparticles where split. (Thanks Nimkahl for the image). If you want to practice with it, just right click and download it.


Once the image is loaded into the program, the first thing is to get the scale of the image. For doing that, simply focus on the scale bar Ctr + Up Arrow. Then use the rectangular bottom to drag a rectangle that fits into the scale bar. Now Analyze>Measure to show the width and height of the rectangle. In this way we will know the relation between size and pixels. In our case 10 micronmeters is the same as 237 pixels.


Now Analyze>Set Scale and use the numbers we got. 


Hit Ok and the scale will be set. To make sure it is correct, if you try now to measure again the rectangle it will have 10 micrometers in length.

The next step now is to turn the image into grayscale (it is almost now but it will make your life easier). Simply Image>Type>8-bit. And now using the threshold you might be able to pick only the nanoparticles. Image>Adjust>Threshold. Make sure the nanoparticles look like red dots.


Once you apply the threshold it should look similar to this.


Now it’s the moment to do nanoparticle counting. Because this image has edges it will not work very well, so I will limit the detection to a particular area. Analyze>Analyze Particles. In the menu that appears you can select many options. Since I know the nanoparticles are around 1 micrometer^2 in area I’m going to limit the Size. Circularity doesn’t have too much effect here because I limit the area where to look for nanoparticles. Include holes is very important because usually nanoparticles appear as a black ring.


When you run this analysis the output looks like this. It will show what was identified as nanoparticles, the summary of the results and also each individual nanoparticle.


According to this the area of the nanoparticles is around 0.982 micrometers^2, good result. And it identify 27 nanoparticles. These results can now be exported into excel files, just in each window File>Save As and save the excel table, or can be plot. In the Results table Results>Distribution and select to use the round. It will appear something like this indicating the most of the nanoparticles are close to be round with a few of them differing quite a lot from round shape.


Hope you find it interesting.

How to sequence the human genome



By Jordan Bradford


By Jason


Today M.E. (Mysterious Explorer) send to me this.

Writing a thesis: a guide to long essays and dissertations.

Original title: Writing a thesis: a guide to long essays and dissertations.

Title of this edition: Writing a thesis: a guide to long essays and dissertations.

Author: George Watson

Gender: Manual/tutorial.

Saga: …

Editorial: Longman Group.

Edition year: 2, 1987.

Prizes: …

Personal Review: Since this is more like a manual, I consider it a better idea to write only the personal review.

First of all, despite it says it is not only for thesis in literature and arts… it is. This is the most important point, this is not a manual for science related thesis. It’s a book about looking for bibliography reading literature books, and It explains how to cite paragraphs and those kinds of things.

It worst point (a part from being old and out of date), is that it encourages writing a thesis citing other works. I mean, in the way it is shown in this books, it looks like all the work in literature and arts consists in an infinite loop where everybody just cites everybody else without adding new contents. A complete disappointment and a book that it doesn’t contribute at all.

It’s best point. At least it points out the same as all the other books about writing scientific literature, and it is the fact that thesis is written to be criticised during it is being written and after finished. Most important, it remarks that having critics is the best that can happens to you because It means you can improve and it means your work is relevant. The other best point of the book is that it actually points the 3 stages in writing or exposing some work: inventio, dispositio and elocutio. I think this last bit compensates the whole book, because I consider it extremely important, it is not the fact of having a good idea a good result or an outbreak in your area, it is also how to arrange it to make sense, to show it to others, to describe it in a fashion that makes sense. And the importance of how to tell what you want to say, because even the best topic, arranged in a perfect way and fitting inside the whole theory can be ruined if it is not showed with elegance.

My mark for this book… let’s say a 5 out of 10.



By Thomas Graafland


Just followed Tadashi Mori tutorial for a F15. Here is the result


Remember the other posts about this artist?

Tadashi Mori. Origami Master (with tutorials)

Tadashi Mori. Origami



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