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Thread Subject:
Now with pictures!

Subject: Now with pictures!

From: Bart

Date: 2 Dec, 2010 10:10:21

Message: 1 of 3

Ah right, that might make solving this problem a little easier. I've uploaded one onto my file exchange thingy here on the website. I've also made a copy on http://img.photobucket.com/albums/v516/BertusB/Osteoclasts/test1.jpg. Thanks again for replying!

Cheers,
Bart

Subject: Counting nucleii in osteoclasts

From: Bart

Date: 2 Dec, 2010 10:22:04

Message: 2 of 3

"Bart " <bertus_beerput@hotmail.com> wrote in message <id7rad$jd8$1@fred.mathworks.com>...
> Ah right, that might make solving this problem a little easier. I've uploaded one onto my file exchange thingy here on the website. I've also made a copy on http://img.photobucket.com/albums/v516/BertusB/Osteoclasts/test1.jpg. Thanks again for replying!
>
> Cheers,
> Bart

Oopsie, this is in 'reply' to the osteoclast question from two days ago. Sorry for the spam, I'm new to this forum and still getting used to all the buttons. Orginal question below!
---------------
Hi everyone,

I'm having troubles with analyzing my cells. I have to determine the amount of nucleii in each osteoclast, and then divide them into groups, eg cells with 1-3 nucleii, 4-6, 7-10, 11-20 and 20+. I've tried out a couple of the 'find me a circle in this picture' scripts, and they work fine for just finding the osteoclasts, but what I need is finding circles INSIDE a circle. Anyone have any ideas? Thanks!

Bart

Subject: Counting nucleii in osteoclasts

From: Sean de

Date: 2 Dec, 2010 15:52:05

Message: 3 of 3

"Bart " <bertus_beerput@hotmail.com> wrote in message <id7s0c$40i$1@fred.mathworks.com>...
> "Bart " <bertus_beerput@hotmail.com> wrote in message <id7rad$jd8$1@fred.mathworks.com>...
> > Ah right, that might make solving this problem a little easier. I've uploaded one onto my file exchange thingy here on the website. I've also made a copy on http://img.photobucket.com/albums/v516/BertusB/Osteoclasts/test1.jpg. Thanks again for replying!
> >
> > Cheers,
> > Bart
>
> Oopsie, this is in 'reply' to the osteoclast question from two days ago. Sorry for the spam, I'm new to this forum and still getting used to all the buttons. Orginal question below!
> ---------------
> Hi everyone,
>
> I'm having troubles with analyzing my cells. I have to determine the amount of nucleii in each osteoclast, and then divide them into groups, eg cells with 1-3 nucleii, 4-6, 7-10, 11-20 and 20+. I've tried out a couple of the 'find me a circle in this picture' scripts, and they work fine for just finding the osteoclasts, but what I need is finding circles INSIDE a circle. Anyone have any ideas? Thanks!
>
> Bart

First isolate the objects, like you say you have done. Are the little circles osteoclasts or the big blobs or both? And the nuclei the little circles in the big blobs?

%%%
I = imread('test1.jpg');
% binarize and remove noise
I = bwareaopen(imfill((255-I)>110,'holes'),20);

imtool(I)

%connected components stuff
CC = bwconncomp(I);

%Now using the PixelIdxList result of CC turn on only the current object (1 in this example, you'll need a loop eventually)
M = false(size(I));
M(CC.PixelIdxList{1}) = true;
Iobj = uint8(M).*I;
imtool(Iobj)

Now figure out how do define the nuclei and count them! I.e. a new segmentation process for just Iobj.
A few hints:
-They're all about the same size
-They're all dark with a light interior

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