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Questions - fiji

ImageJ/Fiji - Save CSV using macro

I am not a coder but trying to turn ThunderSTORM's batch process into an automated one where I have a single input folder and a single output folder. input_directory = newArray("C:\\Users\\me\\De...
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user18715468

imagej

fiji

imagej-macro

Votes: 0

Answers: 0

SimpleITK.Show() generates error in ImageJ on Macbook

I'm struggling with imagej on Jupyter. This is part of the code that i'm running: def ImageGen(a,b,x_0,y_0, sigma_x, sigma_y, theta ): g=GaussianFunc(x_0,y_0,sigma_x,sigma_y,theta) g2=sitk.Get...
test-img

zahra ameli

python

imagej

simpleitk

fiji

Votes: 0

Answers: 1

Latest Answer

Where is your ImageJ executable located? Clearly SimpleITK is not finding it. You can use the SITK_SHOW_COMMAND environment variable give the full path to the ImageJ executable. For instance, on my ...
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Dave Chen

Write ImageJ ROI file from R

In R, I have a matrix that equals an image, where each cell is 0 if it is background and >0 if it is a ROI. Each ROI has its distinct number, so if it spans several matrix cells all these cells wil...
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NicolasH2

r

imagej

roi

fiji

Votes: 0

Answers: 1

Latest Answer

I don't know how to write an roiset in R that can be read by ImageJ, but your matrix is essentially a segmented image. So you could import your matrix as an image into ImageJ and then use a simple mac...
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quantixed

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