Package | Description |
---|---|
apps |
Modifier and Type | Class and Description |
---|---|
class |
AddNoise
app for adding rician noise to noiseless synthetic noiseless
measurements given SNR and scheme file
|
class |
BinaryToText
Purpose:
Converts binary data to text.
|
class |
ChunkStats
Purpose:
Computes statistics of chunks of data.
|
class |
ClassifiedModelFit
Purpose:
Classified model fitting program.
|
class |
ConsistencyFraction
Purpose:
Computes the consistency fraction from multiple-fibre reconstruction
outputs.
|
class |
DT_EigenSystem
Purpose:
Computes the eigensystem of each diffusion tensor.
|
class |
DT_FitMatrix
Purpose:
Creates a matrix for fitting the diffusion tensor via a linear
transform.
|
class |
DT_ShapeStatistics
Computes indices of tensor shape.
|
class |
DT_ToCamino
Converts a NIFTI, ITK or Analyze tensor volume to Camino format.
|
class |
DT_ToNii
Converts Camino dts to Nifti format.
|
class |
ElectrostaticSubsets
Orders electrostatic points into subsets following the method in Cook et al (ISMRM 2005, p.
|
class |
EstimateSNR
Estimates SNR using different methods explained in the paper "Measurement of signal-to-noise ratios in MR
images: Influence of multichannel coils, parallel imaging, and reconstruction filters" by Olaf Dietrich
et al, JMRI 26:376-385 (2007).
|
class |
FanningGrid
Outputs a ball and stick model fanning structure
|
class |
FracAnis
Purpose:
Computes the fractional anisotropy of each diffusion tensor.
|
class |
FSL_ToScheme
Converts FSL b-vectors and b-values to Camino scheme file format.
|
class |
GenerateDTLUT
Makes lookup tables for PICo from diffusion tensor data.
|
class |
ImageToVoxel
Converts Analyze / NIFTI / MHA files to voxel order.
|
class |
InversionStats
Purpose:
Computes statistics of properties of the inversion outputs.
|
class |
LinearRecon
Purpose:
Performs a linear reconstruction in each voxel.
|
class |
MeanDiff
Purpose:
Computes the mean diffusivity (trace/3) of each diffusion tensor.
|
class |
ModelFit
Purpose:
Diffusion data inversion application using model fitting.
|
class |
MultiFibreReconStats
Purpose:
Computes statistics of properties of the multiple-fibre
reconstruction outputs.
|
class |
OrderElectrostaticPoints
Orders electrostatic points according to the method in Cook et al (ISMRM 2006, p.
|
class |
OrientationBiasMap
Iterates over the hemisphere, fitting synthetic data at each point and evaluating its error statistics.
|
class |
PICoPDFs
Calculate PICo PDFs in each voxel.
|
class |
PointSetToScheme
Converts point sets to scheme files, given additional imaging parameters.
|
class |
ProcessStreamlines
Processes streamline output from StreamlineTractography or from a previous invocation of this
program.
|
class |
QBallMX
Purpose:
Generates the transition matrix for QBall
Description: The default option uses the method
descibed by Tuch (MRM, 2004) to generate
the transition matrix for QBall.
|
class |
ScannerToVoxel
Purpose:
Converts scanner order data to the voxel order format used by the Camino
suite.
|
class |
Shredder
Extracts periodic chunks from binary data.
|
class |
SphFuncAnisotropy
Purpose:
Computes the anisotropy of an input stream of spherical functions.
|
class |
SphFuncBitMap
Purpose:
Generates a bitmap showing the spherical function in each voxel
of a region of the input data.
|
class |
SphFuncKurtosis
Purpose:
Computes the kurtosis (fourth root of normalized fourth moment:
\sqrt[4]{\int (f(x) - m)^4/\int f^4(x) dx) normalized by the
anisotropy (see SphFuncAnisotropy) of an input stream of spherical
functions.
|
class |
SphFuncPD_Stats
Purpose:
Computes the peak directions of spherical functions.
|
class |
SphFuncSkewness
Purpose:
Computes the skewness (cube root of normalized third moment:
\sqrt[3]{\int (f(x) - m)^3/\int f^3(x) dx) of an input stream of
spherical functions.
|
class |
SphHarmFitter
Purpose:
Computes the anisotropy based on the spherical harmonic fit.
|
class |
SphPDF_Fit
Fits a spherical PDF to a collection of axes, and outputs a result in the same format
as PICoPDFs (number of PDs is assumed to be 1).
|
class |
Split4D_NiiImage
Splits a 4D Nifti image into 3D component volumes.
|
class |
StreamlineTractography
Does tractography.
|
class |
SubsetScheme
Produces information about the quality of electrostatic subsets, and produces scheme
files for those subsets given the scheme file for the full set.
|
class |
SyntheticData
Purpose:
Creates a stream of synthetic data
Description:
Outputs a specified number of voxels worth of data synthesized from the
specified test function with the specified imaging parameters and noise
level.
|
class |
TraceD
Purpose:
Computes the trace of each diffusion tensor.
|
class |
VoxelClassify
Purpose:
Classifies each voxel as background, isotropic, anisotropic Gaussian or
non-Gaussian.
|
class |
VoxelToScanner
Purpose:
Converts voxel order data to scanner order.
|