Community Profile # Gina Carts

Last seen: 2 years ago Active since 2018

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Question

Present Classification results in Confusion matrix
Hi, I have 9 patients with tumor lesions. 4 radiologists classified the lesions (manually) in 3 Stages for each patient. I wan...

2 years ago | 0 answers | 0

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Question

How to calculate the mean excluding zero voxels
Hi, I have a mask with different regions marked with values 1,2,3 and 4. The background is zero. My data have some NaNs so I...

2 years ago | 1 answer | 0

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Calculate the mean of region with nonzero pixels
I have a mask with regions labeled with 1, 2 and 3. I have a 3D volume that I would like to calculate the mean of the pixels cor...

2 years ago | 1 answer | 0

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How can I count the number of voxels in a region
Hi, I have a 3D mask with 0 background (NIfTI format). The mask has some regions marked with number 1,other egions with number ...

2 years ago | 1 answer | 0

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How can I count the number of times a value occurs
Hi there, I have a 3D array (mask) with the numbers 0 background, 1, 2, 3 and 4. The numbers 1,2,3 and 4 correspond to partic...

2 years ago | 1 answer | 0

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Calculate the mean of nonzero pixels and set a threshold
I previously asked how to calculate the mean of nonzero pixels using my binary mask. The way I did that was m = mean(volume(ma...

3 years ago | 1 answer | 0

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Question

Calculate the mean of nonzero pixels
I have a 3D volume and a 3D binary mask. I want to calculate the mean of the pixels which correspond to the regions where the ma...

3 years ago | 2 answers | 0

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Calculate the mean of 4D image using a 3D mask
Hi there, I have 4D data with dimensions [308,384,26,31]=[x,y,z,time]. I also have a binary 3D mask with dimensions [308, 384,...

3 years ago | 0 answers | 0

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Masking data of 4D images
Hi there, I have a 3D binary mask and I would like to mask my 4D data. So basically I would like to keep the information of my...

3 years ago | 1 answer | 0

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Question

Cannot load .nii.gz files with MATLAB 2017b
Hi there, I have a problem loading Nifti gz files (.nii.gz) with MATLAB 2017b. I am loading my .nii.gz using the below: loa...

3 years ago | 0 answers | 0

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Question

I used the imgaussfilt3 to smooth my 3D images. When you set sigma=1.0 which is the standard deviation of the Gaussian smoothin...

3 years ago | 1 answer | 0

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Question

3D Gaussian filterning affects resolution of the images?
I have used the imgaussfilt3 function to smooth my 3G images. I used the default settings where the 3D Gaussian kernel has stand...

3 years ago | 0 answers | 0

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Question

Gaussian smoothing filtering of 4D data
Hi, I have 4D MRI data (Magnetic Resonace Imaging). Where dimensions are: x-, y-, z- dimension and time. I would like to sm...

3 years ago | 2 answers | 0

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Question

Display data points in boxplots
I am using the boxplot function to create boxplots of my data. But I would also like to plot my data on top of the boxplots. Ca...

3 years ago | 1 answer | 0

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Plot histograms of two samples as plots
I would like to plot the histograms of two samples as a line plot. I've been using the histograms functions but this is not wh...

3 years ago | 1 answer | 0

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Question

Load NifTI zip files in Matlab R2017b
I'm trying to load NifTI zip files in Matab R2017b with the function load_untouch_nii but I keep getting the following error: ...

3 years ago | 0 answers | 0

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How is the residual in lsqnonlin calculated?
Does anyone know how's the residual being calcualted in lsqnonlin function? I am interested to know the formula. Is it : res ...

3 years ago | 0 answers | 0

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Question

Identify the nonzero pixels
I have a stack of 3D volumes, i.e. 4D with dimensions [156, 192, 26, 41]. I have also a 3D binary mask with dimensions [152, 19...

3 years ago | 2 answers | 0

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How to set a threshold in data
I have a 3D images stored in a matrix A. Some pixels are outliers and I want to put a threshold. When the value at particular...

3 years ago | 1 answer | 0

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Question

Covariance matrix not always positive define
I have used the cov Matlab function to calculate the covariance matrix. I calculate the covariance matrix inside a loop and t...

3 years ago | 0 answers | 0

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Polyfit function - NaN
I have the age and blood measurement of some data. For some people the age is missing and I marked them as NaNs. When I used t...

3 years ago | 1 answer | 0

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How to loop over a series of files
I have 10 datasets named data1, data2,data3,...,data10 with dimensions [150,120, 25, 5]. I want to create a big matrix and put a...

3 years ago | 1 answer | 0

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Question

Improving the fitting of data
I have a small group of people (n=15). For each person I have the age and a blood measurement. The relationship between the age ...

3 years ago | 2 answers | 0

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Covert a Binary Image
Hi, I have a 4D binary image filled with 0 and 4. Voxels with 0 appear black and voxels with 4 appear white. How can I make ...

3 years ago | 0 answers | 0

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Question

Access different elements of matrix
I have a 4D matrix with dimensions A = [100,100,25, 9]. I want to create another matrix including only the 2,3,4,5 and 7th elem...

3 years ago | 1 answer | 0

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Can you use Batched partitioned nonlinear least squares to fit 5 parameters?
Hi, I've seen people using the batched partitioned nonlinear least squares to solve nonlinear problems of two unknown parame...

4 years ago | 1 answer | 0