Questions tagged [mri]

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What is the most likely imaging processing step associated with the term 'Riesz' in clinical MRI?

I understand that it is an odd question, and this is arguably not the ideal forum, but I am at a loss. Some of you may be familiar with DICOM as a consensus or standard format for medical image ...
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146 views

Bring two Fourier transforms to same range to add them

I have Fourier transforms of two images which I wish to add (Basically I have an input Fourier transform which I mask, reconstruct the underlying image using an algorithm, and then try to replace the ...
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kSpace data manipulation

I have access to GE MRI scanner data and have been trying to convert the raw kspace data to image format using ifftshit(ifft2(.)). However, the reconstructed images don't match the expected outcome: ...
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Beginner question about MRI

I am used to process PET/CT scans currently I am starting working on magnetic resonance imaging and I have simple question that I can not find answer for. I have files in Dicom and multiple series. ...
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removing stripy artifact from fMRI

I have fMRI images, some of which have a stripy artifact that looks like a Gabor filter. Removing this kind of noise is not, to my knowledge, a standard part of any fMRI processing pipeline. I am ...
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Spatial encoding in MRI and k-space

I am trying to understand how an MR image is formed, how k-space works and how spatial encoding works. My current understanding based on basic medical physics lectures is: slice select in the Z-axis ...
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1 answer
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T1 Mapping in Python?

I'm trying to write a simple program to perform T1 mapping of a few MRI Images. My understanding is that all I need is to plot the pixel intensity values by inversion time then fit a curve. The output ...
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1 vote
1 answer
76 views

Adding noise to real MRI data

I designed an algorithm for MRI data denoising which has good properties under heavy Rician noise (sigma is greater than 80). The method was tested on some phantoms and Rician noise generators. Now I ...
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Why do we not encode frequency in 3 dimensions in MRI?

If I understand correctly, to select a particular slice (of an object, during an MRI scan) that is orthogonal to the direction of the main magnetic field applied, we apply a magnetic field that varies ...
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Will the phase of the reconstructed data using a single MRI k-space point show any curvature?

Some courses tell that each point in k-space (spatial-frequency domain) represents a certain stripe pattern in spatial domain. Reference: https://www.sciencedirect.com/science/article/pii/...
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Quadrature signal acquisition simulation

Bottom-line: how to create a 90 degrees out of phase signal from the real part of the fourier transform of a 1D signal (i.e., fft of a line of an image). ? *(I *(I think the Fourier shift thm can help ...
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1 answer
158 views

Machine learning for denoising MRI images

I'm currently a sophomore in college and pretty new to the field of research. I'm currently working on an existing algorithm for MRI de-noising and the results are nothing that great. I can't see how ...
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2 votes
1 answer
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MRI image reconstruction - reduced scan pecentage

I have an MRI kspace from a siemens 1.5 T scanner with reduced scan percentage ( sampled truncation by not acquiring the most peripheral lines in kspace). The kspace plot in matlab look like below. I ...
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From Fourier (k space) to wavelet domain in MRI sensing

In compressed sensing MRI (cSENSE MRI) technology the idea seems to entail sampling from the Fourier domain (k space) in a way that, when transformed to the wavelet domain ("sparsification"), the ...
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1 answer
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Order of MR Imaging Encoding Steps

Why is it so important to have the phase gradient encoding step come before the frequency gradient encoding step when collecting MR Images? Currently, the phase encoding step is turned on briefly, ...
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1 answer
646 views

Bloch equation: adding gradients

I have a bloch simulation that I have implemented in Python. The implementation is very simple as: ...
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Bloch equations in MRI rotating field

I am trying to understand the workings of an MRI scanner and wanted to figure out how to simulate it by solving Bloch equations in the rotating frame of reference. I have a small query regarding the ...
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1 answer
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Question about MRI signal construction

As I understand it, in MRI, a line in k-space is usually acquired while the readout gradient is applied. So during the application of this gradient the protons spin at different frequencies along the ...
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1 answer
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MRI reconstruction using windowing based apodization

I am trying to apply windowing to do MRI reconstruction. I have a 256 point one dimensional k-space samples which look as follows: Here, the real part(green) is flat around 0 and the blue curve is ...
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Effect on T1 relaxation due to the application of the gradient

In MRI, the T1 relaxation constant for a tissue type is defined as the time taken for the longitudinal relaxation to recover approximately to 63% of its initial value. Is there any modification of ...
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reconstruction of MRI signal

I have written a small simulator where I am trying to simulate the MRI signal generation process. I have a SINC RF Pulse to excite the spins and a readout gradient and k-space sampling during the ...
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2 answers
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Effective field in MRI when solving for Bloch equations

I have a confusion regarding MRI signal formation. So, as I understand it, we need to solve the Bloch equations for the excitation and the relaxation stages: So, in the excitation stage, let us ...
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The description of the MRI signal from the magnetization vector

I have been working on simulating the MRI signal and what I have done so far is simulate the actions of the RF pulse and the required localization gradients. So, in the simulation, I am looking at a ...
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phase evolution of MRI signal during RF excitation

I am trying to compute the phase evolution of a proton spin in the presence of a slice selection gradient. I have the following properties for the slice selection gradient and the RF excitation: <...
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1 answer
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Figuring out how an RF pulse affects the MRI spins

So, I understand how the slice selection gradients work in MRI. So, the frequency offset introduced by the slice selection gradient at a location $z$ relative to the MRI isocenter is given by: $$ \...
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Slice selection in MRI

Looking at some examples in the "handbook of MRI Pulse Sequences" by Bernstein, I see the following: So if I can generate an RF pulse with a bandwidth of 2 kHz and I want a 3 mm slice thickness, the ...
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1 answer
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Gradient echo MRI. Do the gradients have to be the same duration?

I currently got hold of the book "Handbook of MRI Pulse Sequences" and am looking into computing the duration, gradient strength and ramp times for the phase encoding gradient, readout prehasing and ...
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area under the phase encoding gradient in MRI

I have a question about how I could compute the area (duration and amplitude) for the phase encoding gradient in a typical MRI gradient echo sequence. So, let us assume that my field of view in the ...
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1 answer
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Confusion with regards to units in Sinc pulse

I am currently reading a section in the Handbook for MRI Pulse Sequence book where it says that the time-bandwidth product for a SINC pulse is given by: $$ T \Delta f = Z $$ where $T$ is the length ...
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