Man pages for AnalyzeFMRI
Functions for Analysis of fMRI Datasets Stored in the ANALYZE or NIFTI Format
| analyze2nifti | Create a NIFTI file from an Analyze file |
| centering | centering |
| cluster.threshold | Cluster threshold an array. |
| cov.est | Estimates the covariance between neighbouring voxels |
| diminfo2fps | diminfo2fps |
| EC.3D | Expected Euler Characteristic for a 3D Random Field |
| eigenvalues | eigenvalues |
| f.analyze.file.summary | prints summary of .img file contents |
| f.analyzeIO.gui | starts AnalyzeFMRI GUI |
| f.basic.hdr.list.create | creates basic .hdr list in ANALYZE format |
| f.basic.hdr.nifti.list.create | creates basic .hdr list in NIFTI format |
| f.complete.hdr.nifti.list.create | creates complete .hdr list in NIFTI format |
| f.ica.fmri | Applies Spatial ICA (Independent Component Analysis) to fMRI... |
| f.ica.fmri.gui | tcltk GUI to apply ICA to fMRI datasets |
| f.icast.fmri | Applies Spatial or Temporal ICA (Independent Component... |
| f.icast.fmri.gui | tcltk GUI to apply Spatial or Temporal ICA to fMRI NIFTI... |
| f.nifti.file.summary | prints summary of .img file contents |
| fourDto2D | fourDto2D |
| f.plot.ica.fmri | Plots a specified component from the output of f.ica.fmri |
| f.plot.ica.fmri.jpg | Plot the components of the ouput of f.ica.fmri to a series of... |
| f.plot.volume.gui | tcltk GUI to display FMRI or MRI images |
| fps2diminfo | fps2diminfo |
| f.read.analyze.header | read Analyze header file |
| f.read.analyze.slice | read one slice from a .img file |
| f.read.analyze.slice.at.all.timepoints | reads a slice at all time points from a .img file |
| f.read.analyze.tpt | Read in a volume at one time point |
| f.read.analyze.ts | read in one voxel time series |
| f.read.analyze.volume | read whole .img file |
| f.read.header | read ANALYZE or NIFTI header file |
| f.read.nifti.header | read Nifti header file |
| f.read.nifti.slice | read one slice from a .img or .nii file in NIFTI format |
| f.read.nifti.slice.at.all.timepoints | reads a slice at all time points from a NIFTI .img or .nii... |
| f.read.nifti.tpt | Read in a volume at one time point |
| f.read.nifti.ts | read in one voxel time series |
| f.read.nifti.volume | read whole image file |
| f.read.volume | read whole image file |
| f.spectral.summary | plots graphical summary of spectral properties of an fMRI... |
| f.spectral.summary.nifti | plots graphical summary of spectral properties of an fMRI... |
| f.write.analyze | writes an array to a .img/.hdr pair in ANALYZE format |
| f.write.array.to.img.2bytes | write array of 2 byte integers |
| f.write.array.to.img.8bit | write array of 1 byte integers |
| f.write.array.to.img.float | write array of 4 byte floats |
| f.write.list.to.hdr | writes a .hdr file in ANALYZE format |
| f.write.list.to.hdr.nifti | writes a .hdr file in NITI format |
| f.write.nifti | writes an array to a .img/.hdr pair in NIFTI format or to a... |
| f.write.nii.array.to.img.2bytes | write array of 2 byte integers and add at the begining of the... |
| f.write.nii.array.to.img.8bit | write array of 1 byte integers and add at the begining of the... |
| f.write.nii.array.to.img.float | write array of 4 byte floats and add at the begining of the... |
| GaussSmoothArray | Spatially smooth an array with Gaussian kernel. |
| GaussSmoothKernel | Calculates a discrete Gaussian smoothing kernel. |
| ICAspat | ICAspat |
| ICAtemp | ICAtemp |
| ijk2xyz | ijk2xyz |
| magicfield | Get magicfield from the header of an image file |
| mat34.to.TRSZ | Affine 4x4 (or 3x4) matrix to Translation, Rotation, Shear... |
| mat34.to.TZSR | Affine 4x4 (or 3x4) matrix to Translation, Scale, Shear and... |
| model.2.cov.func | Calculates covariance from Hartvig Model 2 |
| model.2.est.gamma | Estimate gamma for Model 2 of Hartvig and Jensen (2000) |
| N2G | Fits the N2G model |
| N2G.Class.Probability | Posterior Probabilities for N2G model |
| N2G.Density | Calculates the density function for the N2G model |
| N2G.Fit | Optimzation function for N2G model |
| N2G.Inverse | Transform parameters of N2G model back to their real domains |
| N2G.Likelihood | Calculates the (negative) Likelihood of the N2G model |
| N2G.Likelihood.Ratio | N2G Likelihood Ratio's |
| N2G.Region | N2G Normal component interval |
| N2G.Spatial.Mixture | fMRI Spatial Mixture Modelling |
| N2G.Transform | Transform parameters of N2G model so as to lie on the real... |
| nifti.quatern.to.mat44 | Quaternion (etc..) to affine 4x4 matrix |
| NonLinearSmoothArray | Non-linear spatial smmothing of 3D and 4D arrays. |
| orientation | Orientation storage |
| Q2R | Quaternion to rotation |
| R2Q | Rotation to quaternion |
| reduction | reduction |
| Sim.3D.GammaRF | Simulate Gamma distributed Random Field |
| Sim.3D.GRF | Simulate a GRF |
| SmoothEst | Estimate the variance-covariance matrix of a Gaussian random... |
| st2xyzt | st2xyzt |
| threeDto4D | threeDto4D |
| Threshold.Bonferroni | Calculates Bonferroni Threshold |
| Threshold.FDR | False Discovery Rate (FDR) Threshold |
| Threshold.RF | Random Field Theory Thersholds. |
| twoDto4D | twoDto4D |
| xyz2ijk | xyz2ijk |
| xyzt2st | xyzt2st |
