Functions for Analysis of fMRI Datasets Stored in the ANALYZE or 'NIFTI' Format
Create a NIFTI file from an Analyze file
centering
Cluster threshold an array.
Estimates the covariance between neighbouring voxels
diminfo2fps
Expected Euler Characteristic for a 3D Random Field
eigenvalues
prints summary of .img file contents
starts AnalyzeFMRI GUI
creates basic .hdr list in ANALYZE format
creates basic .hdr list in NIFTI format
creates complete .hdr list in NIFTI format
tcltk GUI to apply ICA to fMRI datasets
Applies Spatial ICA (Independent Component Analysis) to fMRI datasets
tcltk GUI to apply Spatial or Temporal ICA to fMRI NIFTI datasets
Applies Spatial or Temporal ICA (Independent Component Analysis) to fM...
prints summary of .img file contents
Plot the components of the ouput of f.ica.fmri to a series of jpeg fil...
Plots a specified component from the output of f.ica.fmri
tcltk GUI to display FMRI or MRI images
read Analyze header file
reads a slice at all time points from a .img file
read one slice from a .img file
Read in a volume at one time point
read in one voxel time series
read whole .img file
read ANALYZE or NIFTI header file
read Nifti header file
reads a slice at all time points from a NIFTI .img or .nii file
read one slice from a .img or .nii file in NIFTI format
Read in a volume at one time point
read in one voxel time series
read whole image file
read whole image file
plots graphical summary of spectral properties of an fMRI dataset
plots graphical summary of spectral properties of an fMRI dataset
writes an array to a .img/.hdr pair in ANALYZE format
write array of 2 byte integers
write array of 1 byte integers
write array of 4 byte floats
writes a .hdr file in NITI format
writes a .hdr file in ANALYZE format
writes an array to a .img/.hdr pair in NIFTI format or to a .nii file
write array of 2 byte integers and add at the begining of the file the...
write array of 1 byte integers and add at the begining of the file the...
write array of 4 byte floats and add at the begining of the file the N...
fourDto2D
fps2diminfo
Spatially smooth an array with Gaussian kernel.
Calculates a discrete Gaussian smoothing kernel.
ICAspat
ICAtemp
ijk2xyz
Get magicfield from the header of an image file
Affine 4x4 (or 3x4) matrix to Translation, Rotation, Shear and Scale
Affine 4x4 (or 3x4) matrix to Translation, Scale, Shear and Rotation
Calculates covariance from Hartvig Model 2
Estimate gamma for Model 2 of Hartvig and Jensen (2000)
Posterior Probabilities for N2G model
Calculates the density function for the N2G model
Optimzation function for N2G model
Transform parameters of N2G model back to their real domains
N2G Likelihood Ratio's
Calculates the (negative) Likelihood of the N2G model
Fits the N2G model
N2G Normal component interval
fMRI Spatial Mixture Modelling
Transform parameters of N2G model so as to lie on the real line.
Quaternion (etc..) to affine 4x4 matrix
Non-linear spatial smmothing of 3D and 4D arrays.
Orientation storage
Quaternion to rotation
Rotation to quaternion
reduction
Simulate Gamma distributed Random Field
Simulate a GRF
Estimate the variance-covariance matrix of a Gaussian random field
st2xyzt
threeDto4D
Calculates Bonferroni Threshold
False Discovery Rate (FDR) Threshold
Random Field Theory Thersholds.
twoDto4D
Working directory
xyz2ijk
xyzt2st
Functions for I/O, visualisation and analysis of functional Magnetic Resonance Imaging (fMRI) datasets stored in the ANALYZE or 'NIFTI' format. Note that the latest version of 'XQuartz' seems to be necessary under MacOS.
