For questions about methodology and tools related to functional magnetic resonance imaging. For general questions about brain-structure use neurobiology, and for general imaging questions use neuroimaging.

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2
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21 views

fMRI images: In-plane resolution, slice thickness

I have a set of fMRI images (.nii.gz). Now I want to infer the in-plane resolution and the slice thickness. Can this information and perhaps additional information be retrieved with FSL or Matlab? And ...
0
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0answers
18 views

I am trying to flip .nii images using pm_flip but it isn't working

I am using pm_flip to try and flip .nii images, but when the window opens to select the images, it shows that there is nothing in the folder that holds my images.
1
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0answers
32 views

reliability of fmri and pet [closed]

While I admit that pet/frmri scanning is possibly reliable when measuring physical aspects of the body, I would like to know how reliable it is when measuring cognitive aspects e.g. emotion. How ...
2
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0answers
15 views

(Co)Registration in the preprocessing pipeline

I have a general question about registration and coregistration in the preprocessing pipeline of fMRI images. For me it is not clear what this is. So, motion correction, slice time correction, ...
2
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1answer
20 views

Slices and aquisition of fMRI

Is a slice obtained with functional MRI (fMRI) always 3-dimensional, i.e., x-y-z? I thought that a typical fMRI scan's total imaged volume would be 4D, i.e., made up of 3D slices plus time.
7
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1answer
48 views

Why “fractional” anisotropy?

Why is Fractional Anisotropy (FA), a measure in diffusion tensor imaging, called "fractional"? I'd have thought "local", i.e. voxel-wise, would have been the correct way to qualify the anisotropy that ...
4
votes
1answer
41 views

Are there any studies (fMRI scans, etc) showing why some people (supposedly) are more open to hypnotism?

In this article published in Harper's magazine back in 1996, journalist David Foster Wallace described his experience with hypnotist Nigel Ellery (see the last section of the article, titled "THE ...
5
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1answer
34 views

Reference request for creator of heuristic for processing fMRI data (T.Nichols)

I am using nilearn and nipy package for python processing FMRI data. When computing mask, it says: Compute and write the mask of an image based on the grey level This is based on an heuristic ...
3
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1answer
20 views

Why superimposing PET data on MRI scan images instead of doing fMRI scans?

I'm currently reading this paper: Savic & Lindström (2008). PET and MRI show differences in cerebral asymmetry and functional connectivity between homo- and heterosexual subjects. It certainly ...
3
votes
1answer
53 views

Can fMRI and EEG signals be generated from NEF models?

The basic function of the NEF is to map the outside world onto neurons, using the firing rates of the neurons. It also supports various neuron models. Have these firing rates been used to create EEG ...
4
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0answers
29 views

Neurophysiological indications of focus and motivation

Is there any way to detect a subject being focused or highly motivated (assuming that these two states are essentially the same) using any sort of external detection, such as fMRI or EEG? How would ...
9
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1answer
130 views

How does glial cell activity influence fMRI, EEG signals?

Glial cells comprise about 80% of the cells in the human brain. But physiological models of EEG and fMRI often relate only to neuronal activity. How do glial cells affect large-scale imaging ...
5
votes
1answer
41 views

Is there a good entry-level tutorial for SPM?

The title pretty much says it all. I need to do some fMRI data analysis and I can't find any entry-level tutorials for Statistical Parameter Mapping (SPM). I've looked at some of the videos on the ...
5
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1answer
100 views

What does fMRI measure exactly

It is true that blood flows to wherever the brain is most activated and does fMRI measure the blood flow inside of the brain through oxygen content?
3
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1answer
38 views

Are there any fMRI decoding papers examining the relationship between attentional cueing and activity in V1?

I'm interested in reading on the influence of exogenous attention on cortical representations in early visual areas, but so far my google-fu seems to be failing me. There seems to be some literature ...
4
votes
1answer
53 views

Finding consciousness through EEG

I've read an article about the consciousness in vegetative patients. Adrian Owen is one of the neuroscientist making research on this field. The article published on "Le scienze" was about the usage ...
4
votes
1answer
157 views

MRI images upside-down in FSLVIEW

I'm visualizing structural data in FSLVIEW, but the sagittal and coronal planes are both upside-down / not in the conventional orientation, i.e. rotated by 90º and 180º. I understand that this ...
3
votes
1answer
187 views

What are new and exciting research areas or applications in systems neuroscience? [closed]

Like the title says, what are new and exciting research areas or applications in systems neuroscience? I know the question is a broad one, so let me narrow it down a bit: I will get my master's ...
6
votes
2answers
326 views

Open fMRI data (or, collaborators)?

Are there any open fMRI datasets available on the internet? Experimental design doesn't matter much, since I would be working towards a new data analysis method. If the distributed data has been ...
11
votes
2answers
358 views

What are different ways to determine centroids of fMRI activation, their drawbacks and perks?

I'm reading an older article on bilingualism (Kim, Relkin, Lee, & Hirsch, 1997) for a seminar. They were interested in the spatial separation of two languages in early and late bilinguals. They ...
9
votes
2answers
626 views

Plotting publication-quality ball-and-stick models of brain connectivity in 3D

I'm working on brain imaging (fMRI) and I'm looking for a way to plot brain effective connectivity (dynamic causal modeling) parameters between different brain regions in a 3D plot. The plotting ...
6
votes
1answer
78 views

Is there any fMRI evidence for different “states of mind”?

If you've seen a snickers commercial, it goes something like "you are a different person when you are hungry". I'm interested if the person's brain actually looks different when observed through fMRI ...
5
votes
1answer
45 views

Is it reasonable to have a factor with only two levels in a carry-over design for an fMRI study?

I'm planning a carry-over design for an fMRI study. To save time, since it seems that I'll need a huge number of trials for my purpose, I'm wondering if it's reasonable to have a matrix 2x3x3, ...