Maloy Ghosh a écrit :
> Hi
> In continuation of Rona's question....
>
> We are working on images of particles and cells with different intensities
> and sizes. It will be very useful to divide the image in smaller squares and
> extracting data from individual square.
> The "analyze particle" function gives data from whole image or one selected
> region of the image. Is it possible to use multiple ROIs to divide the image
> and get information from individual ROI?
> I am a new user of ImageJ, any help would be much appreciated.
> Regards
> Maloy Ghosh
>
>
> On Tue, Dec 8, 2009 at 7:34 PM, rona baron <
[hidden email]> wrote:
>
>
>> Hi,
>>
>> I'm not familiar with imajeJ , but I would like to know if it is possible
>> to count the amount of cells in each box of a grid that I generate on the
>> image.
>> The detailed procedure is:
>> I divide the image into 8*8 squares. Now, I need to count how many cells I
>> have in each square of the grid (or the stained area of each square).
>>
>> Do you have any suggestions???
>>
>> Thanks,
>> Rona
>>
>>
>
>
Hi I wrote a macro to simplify stacks.
It creates an array of roi's and next creates for each roi a new image
wich can then be processed with for example analyze particles...
Her the code, wich may be adapted :
run("Misc...", "divide=Infinity hide");
title = "Untitled";
width=1; height=1;
Dialog.create("Image Sampling");
Dialog.addNumber("Width divider", 1);
Dialog.addNumber("Height divider", 1);
Dialog.addNumber("First slice", 1);
Dialog.addNumber("Last slice", 1);
Dialog.addNumber("Increment", 1);
Dialog.addNumber("Substacks", 1);
Dialog.show();
wd = Dialog.getNumber();
hd = Dialog.getNumber();
fs = Dialog.getNumber();
ls = Dialog.getNumber();
inc = Dialog.getNumber();
substacks = Dialog.getNumber();
run("Slice Remover", "first="+fs+" last="+ls+" increment="+inc);
getDimensions(width, height, channels, slices, frames);
w=width/wd;
h=height/hd;
s=slices;
p=fs;
d=ls;
for (j=0;j<hd;j++){
for (i=0; i<wd; i++) {
x= i*(width/wd);
y=j*(height/hd);
makeRectangle(x, y, w, h);
roiManager("Add");
};
};
setOption("Show All",true);
name = getTitle;
dotIndex = indexOf(name, ".");
title = substring(name, 0, dotIndex);
// Get path to result directory
result = getDirectory("result");
if (result=="")
exit("No result directory available");
// Create a directory in temp
myDir = result+title+File.separator;
File.makeDirectory(myDir);
if (!File.exists(myDir))
exit("Unable to create directory");
print("");
print(myDir);
myID = getImageID();
n = roiManager("count");
for (i=0; i<n; i++) {
selectImage(myID);
roiManager("select", i);
run("Duplicate...", "duplicate range="+p+"-"+d);
saveAs("tiff", myDir+title+"_"+i+1);
close();
}
Locked
