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Command list and man pagesThis page contains a full list of Camino commands with links to HTML versions of each one's man page from the current Camino code. The man page for your particular version of the code may be viewed locally from a terminal by typing man M camino/man <command>. A general page reference for Camino file formats is here. The file formats are also documented in the relevant man pages below. adcfit  Fits the apparent diffusion coefficient to diffusion MRI addnoise  Adds noise to diffusion MRI measurements. analyze2voxel  Converts scannerorder data in Analyze format to voxelorder data. analyzedti  Takes Analyze format raw data and outputs DT data in Analyze format analyzeheader  Create or read an Analyze 7.5 header file. axialdistfit  Fits an axial PDF to sets of axes. ballstickfit  Fits a partial volume model to diffusion MRI measurements. byte2txt  Converts binary byte data to text. camino  Overview of the Camino diffusion MR reconstuction toolkit char2txt  Converts binary char data to text. combinetwofibreluts  Combine two fibre LUTs with a range of consfrac  Computes the consistency fraction for multiple fibre reconstructions. countseeds  Counts seed voxels within an image. cpstats  Does statistics on PICo maps. datastats  Computes simple statistics of each diffusion weighted measurement within a region of interest. datasynth  Generates synthetic diffusion MRI data. double2txt  Converts bigendian binary double data to text. dt2nii  Converts Camino tensors to nii files. dteig  Computes the eigensystem of tensors. dtfit  Fits the diffusion tensor to diffusion MRI measurements. dtlutgen  Generates a PICo lookup table (LUT) or tables. dtmx  Creates a linear transform for fitting the diffusion tensor. dtpdview  Visualizes principal directions of diffusion tensors dtshape  Computes DT shape statistics. estimatesnr  Estimates the signal to noise ratio in b=0 images. fa  Computes the fractional anisotropy of tensors. FanningGrid Creates a voxel grid simulating fanning structure. float2txt  Converts bigendian binary float data to text. fsl2scheme  converts bvectors and bvalues from FSL format to a Camino scheme file. image2voxel  Converts scannerorder data in a supported image format to voxelorder data. int2txt  Converts bigendian binary integer data to text. invstats  Computes statistics of populations of diffusion tensors. linrecon  Runs a linear transformation in each voxel. long2txt  Converts bigendian binary long integer data to text. mask  Creates a background mask from a voxelordered DW data file by maxcp  Computes the maximum connection probabilty over a region of interest. mbalign  Aligns the diffusionweighted images within a single acquisition. md  Computes the mean diffusivity (trace/3) from diffusion tensors. meancp  Computes the mean connection probability over an ROI mediancp  Computes the median connection probability over an ROI mesd  Maximum entropy spherical deconvolution. metadt2camino  Converts MetaIO tensors to Camino. mfrstats  Computes statistics of populations of multiple fibre directions. mincp  Computes the minimum connection probability over and ROI modelfit  Fits models of the spindisplacement density to diffusion MRI measurements. multitenfit  Fits one or more diffusion tensors to the data in each voxel according to a voxel classification map to specify the number of niftidt2camino  Converts NIFTI1 tensors to Camino. niftiheader  Read a NIFTI1 header and print the header attributes. orderpoints  Order points such that a partial scan has evenly spaced gradient directions pdview  Visualizes principal direction(s) in each voxel picocalibdata  Creates synthetic data for PICo calibration picopdfs  Gets the parameters of a PICo PDF for an image. pointset2scheme  Creates scheme files from point sets. procstreamlines  Process streamline data qballmx  Creates a reconstruction matrix for QBall reorient  Reorients diffusion tensors for consistency with an image transformation. restore  Fits the diffusion tensor to diffusion MRI measurements robustly using the RESTORE algorithm by Chang et al MRM 53 2005. rgbscalarimg  Create an RGB image from diffusion peak directions, modulated by a scalar image (eg, anisotropy). scanner2voxel  Converts scannerorder data to voxelorder data. scheme2fsl  Reads a Camino V0 scheme file and writes FSL bvecs and bvals files. sfanis  Computes an index of anisotropy of spherical functions. sfkurtosis  Computes an index of kurtosis of spherical functions. sflutgen  Generates PICo lookup tables (LUT) for multifibre methods such as PASMRI and QBall. sfpeaks  Finds the peaks of spherical functions. sfpicocalibdata  Generates Spherical Function PICo Calibration Data sfplot  Plots the output of various diffusion MRI reconstruction algorithms over slices through data sets. sfskewness  Computes an index of skewness of spherical functions. shfit  Fits the spherical harmonic series to the log measurements. shformatconverter  Converts spherical harmonics from third party programs into the format used by camino. short2txt  Converts bigendian binary short integer data to text. shredder  Extracts periodic chunks from a data stream. split4dnii  Converts 4D or 5D NIFTI1 files to 3D volumes. subsetpoints  Order points into subsets such that each subset has evenly spaced gradient directions subsetscheme  Create scheme files from a subset of directions in an existing scheme targetprobs2txt  Converts results of connectivity based segmentation to a text file. threetenfit  Fits three diffusion tensors to diffusion MRI measurements. track  Performs streamline tractography. shredder Extracts bunches of streamlines. tractstatimage  Computes images based on statistics from streamline tracts. tractstats  Computes statistics from streamline tracts. trd  Computes the trace of tensors. twotenfit  Fits two diffusion tensors to diffusion MRI measurements. vcthreshselect  Visualizes Ftest data from voxelclassify(1). voxel2scanner  Converts voxelorder data to scannerorder data. voxelclassify  Classifies voxels according to the lowestorder spherical voxelmean  calculates the mean of each diffusion MRI measurement in a set of voxels. vtkstreamlines  Convert streamlines to VTK wdtfit  Fits the diffusion tensor to diffusion MRI measurements. 