Differences

This shows you the differences between two versions of the page.

--- neuroelf_-_all_functions [2010/06/22 04:18] – created jochen
+++ neuroelf_-_all_functions [2010/06/22 04:29] – added C-code (and info for respective M files) jochen
@@ Line 1: / Line 1: @@
-====== NeuroElf - all functions (list only) ======
+====== NeuroElf - all functions ======
-[[acpc2tal]] - convert AC-PC coordinates into TAL coordinates
+===== Toolbox base folder, M-file list only ======
-[[acsvread]] - reads a text based (non-numeric) csv file
+  * [[acpc2tal]] - convert AC-PC coordinates into TAL coordinates
-[[afni_parse]] - internal parser for AFNI HEADer file structures
+  * [[acsvread]] - reads a text based (non-numeric) csv file
-[[alphasim]] - simulate noise data to estimate cluster threshold
+  * [[afni_parse]] - internal parser for AFNI HEADer file structures
-[[analyze_setendian]] - set endian type for Analyze files
+  * [[alphasim]] - simulate noise data to estimate cluster threshold
-[[any2ascii]] - packs simple as well as complex variables into ascii
+  * [[analyze_setendian]] - set endian type for Analyze files
-[[applybvtrf]] - apply BV transformation matrix to system coords
+  * [[any2ascii]] - packs simple as well as complex variables into ascii
-[[applyfdr]] - apply FDR thresholding to given statistic
+  * [[applybvtrf]] - apply BV transformation matrix to system coords
-[[asciiread]] - reads a textfile into one char array
+  * [[applyfdr]] - apply FDR thresholding to given statistic
-[[asciitab]] - create custom ASCII representation of 2-D matrix
+  * [[asciiread]] - reads a textfile into one char array
-[[asciiwrite]] - writes a textfile from a char array to file
+  * [[asciitab]] - create custom ASCII representation of 2-D matrix
-[[autocorr]] - estimate auto-correlation in data
+  * [[asciiwrite]] - writes a textfile from a char array to file
-averagepmps - average PMP objects and create new object (//abandoned for now//)
+  * [[autocorr]] - estimate auto-correlation in data
-[[averagevmrs]] - average VMRs
+  * averagepmps - average PMP objects and create new object (//abandoned for now//)
-[[barycoord]] - returns barycentric coordinates of point vs. triangle
+  * [[averagevmrs]] - average VMRs
-[[bcc2area]] - lookup TalairachBrain.vmr color codes
+  * [[barycoord]] - returns barycentric coordinates of point vs. triangle
-[[binread]] - reads a binary into one uint8 array
+  * [[bcc2area]] - lookup TalairachBrain.vmr color codes
-[[binwrite]] - writes a binary stream from a char/uint8 array to file
+  * [[binread]] - reads a binary into one uint8 array
-bitdump - dump bits in a uint buffer (//abandoned for now//)
+  * [[binwrite]] - writes a binary stream from a char/uint8 array to file
-[[bvcoordconv]] - converting coordinates for BV
+  * bitdump - dump bits in a uint buffer (//abandoned for now//)
-[[bvtrf]] - compile a transformation matrix as in the 3D volume tools
+  * [[bvcoordconv]] - converting coordinates for BV
-bvxaddvartofile - add a variable to an existing BVX file (//abandoned for now//)
+  * [[bvtrf]] - compile a transformation matrix as in the 3D volume tools
-bvxcreatefile - create new BVX file (//abandoned for now//)
+  * bvxaddvartofile - add a variable to an existing BVX file (//abandoned for now//)
-[[calcbetas]] - perform GLM regression
+  * bvxcreatefile - create new BVX file (//abandoned for now//)
-[[checkstruct]] - check an 1x1 struct for validity
+  * [[calcbetas]] - perform GLM regression
-[[checksyntax]] - checks a snippet of code for syntax validity
+  * [[checkstruct]] - check an 1x1 struct for validity
-[[clearxffobjects]] - issue ClearObject call on several objects
+  * [[checksyntax]] - checks a snippet of code for syntax validity
-[[clustercoords]] - get list of clusters in volume
+  * [[clearxffobjects]] - issue ClearObject call on several objects
-[[clustercoordsc]] - get list of clusters in volume
+  * [[clustercoords]] - get list of clusters in volume
-[[clustermeshmap]] - cluster a SMP/SRF based map
+  * [[clustercoordsc]] - get list of clusters in volume (//MEX file stub/help//)
-[[clustermeshmapbin]] - cluster binary mesh-based map
+  * [[clustermeshmap]] - cluster a SMP/SRF based map
-[[clustervol]] - cluster volume with threshold
+  * [[clustermeshmapbin]] - cluster binary mesh-based map
-[[clustervol_struct]] - create cluster struct (cell array) for TW tools
+  * [[clustervol]] - cluster volume with threshold
-[[colcode2uint32]] - convert from colcode to uint32 array
+  * [[clustervol_struct]] - create cluster struct (cell array) for TW tools
-[[colorpicker]] - pick a color from the RGB/HSV color space
+  * [[colcode2uint32]] - convert from colcode to uint32 array
-[[computehrv]] - compute HRV from onsets
+  * [[colorpicker]] - pick a color from the RGB/HSV color space
-[[conjval]] - conjugate value (same sign, min abs value with sign)
+  * [[computehrv]] - compute HRV from onsets
-[[conjvalp]] - conjugate pvalues (same sign, max value with sign)
+  * [[conjval]] - conjugate value (same sign, min abs value with sign)
-[[conv3d]] - perform 3D convolution
+  * [[conjvalp]] - conjugate pvalues (same sign, max value with sign)
-[[convones]] - convoles a function with a number of consecutive ones
+  * [[conv3d]] - perform 3D convolution (//MEX file stub/help//)
-[[correlinvtstat]] - convert t-statistic into correlation value
+  * [[convones]] - convoles a function with a number of consecutive ones
-[[correlpvalue]] - pvalue of correlation coefficient
+  * [[correlinvtstat]] - convert t-statistic into correlation value
-[[correltstat]] - convert correlation value into t-statistic
+  * [[correlpvalue]] - pvalue of correlation coefficient
-[[corrmap]] - correlation map
+  * [[correltstat]] - convert correlation value into t-statistic
-[[cov_nd]] - computes covariance and corrcoefs for vector pairs in N-D
+  * [[corrmap]] - correlation map
-cpfile - copies a file (//**deprecated!** use copyfile instead//)
+  * [[cov_nd]] - computes covariance and corrcoefs for vector pairs in N-D (//MEX file stub/help//)
-crawford_abnorm - calculate Crawford's score abnormality measure (//abandoned for now//)
+  * cpfile - copies a file (//**deprecated!** use copyfile instead//)
-crawford_diff - calculate Crawford's single case t-score (//abandoned for now//)
+  * crawford_abnorm - calculate Crawford's score abnormality measure (//abandoned for now//)
-crawford_diss - calculate Crawford's single case dissociation t-score (//abandoned for now//)
+  * crawford_diff - calculate Crawford's single case t-score (//abandoned for now//)
-[[createfmr]] - create a FMR from a set of IMA/DCM files
+  * crawford_diss - calculate Crawford's single case dissociation t-score (//abandoned for now//)
-[[createmarkervmp]] - create a VMP map with markers (electrode indicators)
+  * [[createfmr]] - create a FMR from a set of IMA/DCM files
-[[createsrf]] - create a SRF object from coordinates and triangles
+  * [[createmarkervmp]] - create a VMP map with markers (electrode indicators)
-[[createvmr]] - create a VMR from a set of IMA/DCM files
+  * [[createsrf]] - create a SRF object from coordinates and triangles
-[[csvdbupdate]] - update the data field from CSV files
+  * [[createvmr]] - create a VMR from a set of IMA/DCM files
-[[custom_pwelch]] - compute Welch's periodogram power spectrum
+  * [[csvdbupdate]] - update the data field from CSV files
-cutnpastemovie - create an AVI movie from bitmap files (//abandoned for now//)
+  * [[custom_pwelch]] - compute Welch's periodogram power spectrum
-[[ddeblank]] - deblank on both ends of strings
+  * cutnpastemovie - create an AVI movie from bitmap files (//abandoned for now//)
-[[degclust]] - degree of clustering of data
+  * [[ddeblank]] - deblank on both ends of strings
-[[depcorrt]] - dependent correlation comparison t statistic
+  * [[degclust]] - degree of clustering of data
-detecthandles - detect handles in 3D segmentation (//abandoned for now//)
+  * [[depcorrt]] - dependent correlation comparison t statistic
-detecthandles_o - detect handles in 3D segmentation (//abandoned for now//)
+  * detecthandles - detect handles in 3D segmentation (//abandoned for now//)
-[[dicom4todmr]] - cheap try to convert a DICOM4 file into DMR/DWI
+  * detecthandles_o - detect handles in 3D segmentation (//abandoned for now//)
-[[dicom4tofmr]] - cheap try to convert a DICOM4 file into FMR/STC
+  * [[dicom4todmr]] - cheap try to convert a DICOM4 file into DMR/DWI
-[[dilate3d]] - perform 3D dilation with operator
+  * [[dicom4tofmr]] - cheap try to convert a DICOM4 file into FMR/STC
-[[dispslice]] - displays a 2-D dataset as an image
+  * [[dilate3d]] - perform 3D dilation with operator
-[[dispslicemovie]] - display slice movie
+  * [[dispslice]] - displays a 2-D dataset as an image
-[[emptysrf]] - create an empty surface container
+  * [[dispslicemovie]] - display slice movie
-[[erode]] - perform 3D erosion with operator
+  * [[emptysrf]] - create an empty surface container
-[[exceltocoords]] - converts MS-Excel notation into 1x4 double array
+  * [[erode]] - perform 3D erosion with operator
-[[extcaller]] - from where was a call issued
+  * [[exceltocoords]] - converts MS-Excel notation into 1x4 double array
-[[fdr_thresholds]] - compute probability thresholds for q(FDR) levels
+  * [[extcaller]] - from where was a call issued
-[[fendian]] - return an argument suitable for fopen (endianess)
+  * [[fdr_thresholds]] - compute probability thresholds for q(FDR) levels
-[[fileguessendian]] - guess endian type of (partial) file content
+  * [[fendian]] - return an argument suitable for fopen (endianess)
-[[filesize]] - return a file's size in bytes
+  * [[fileguessendian]] - guess endian type of (partial) file content
-[[fileswapendian]] - swap endian type of (partial) file content
+  * [[filesize]] - return a file's size in bytes
-[[findfiledir]] - find a named file or directory
+  * [[fileswapendian]] - swap endian type of (partial) file content
-[[findfiles]] - Linux/UNIX-like find command/function
+  * [[findfiledir]] - find a named file or directory
-[[findfirst]] - find first (or last) element != 0 in input
+  * [[findfiles]] - Linux/UNIX-like find command/function
-[[fisherr2z]] - convert Pearson correlation into z values
+  * [[findfirst]] - find first (or last) element != 0 in input (//MEX file stub/help//)
-[[fitrobustbisquare]] - faster fitting function for robust bisquare
+  * [[fisherr2z]] - convert Pearson correlation into z values
-[[fitrobustbisquare_img]] - faster fitting function for robust bisquare
+  * [[fitrobustbisquare]] - faster fitting function for robust bisquare
-[[flexinterp]] - flexible data interpolation (up to 4D)
+  * [[fitrobustbisquare_img]] - faster fitting function for robust bisquare
-[[flexinterpn_demo]] - demonstration of flexinterpn
+  * [[flexinterpn]] - flexible data interpolation (up to 4D) (//MEX file stub/help//)
-[[flexinterpn_method]] - call flexinterpn with one of the typical methods
+  * [[flexinterpn_demo]] - demonstration of flexinterpn
-[[flexmask]] - flexible data masking
+  * [[flexinterpn_method]] - call flexinterpn with one of the typical methods
-[[floodfill3]] - keep adjacent values from seed point
+  * [[flexmask]] - flexible data masking (//MEX file stub/help//)
-[[fmriqasheet]] - create figure with output of fmriquality
+  * [[floodfill3]] - keep adjacent values from seed point
-[[fmriquality]] - get some quality assurance for fMRI data
+  * [[fmriqasheet]] - create figure with output of fmriquality
-[[gammapdf]] - gamma distribution Probability Density Function (PDF)
+  * [[fmriquality]] - get some quality assurance for fMRI data
-[[glmtstat]] - compute GLM t statistic
+  * [[gammapdf]] - gamma distribution Probability Density Function (PDF)
-[[gluetostring]] - glues a cell array of chars to one delimited char array
+  * [[glmtstat]] - compute GLM t statistic
-[[gluetostringc]] - C-version of gluetostring
+  * [[gluetostring]] - glues a cell array of chars to one delimited char array
-gradsmooth - apply gradient based smoothing (//abandoned for now//)
+  * [[gluetostringc]] - C-version of gluetostring (//MEX file stub/help//)
-[[grep]] - GNU utils like grep
+  * gradsmooth - apply gradient based smoothing (//abandoned for now//)
-[[gzip]] - console/shell interface for MATLAB (does NOT work on Windows!)
+  * [[grep]] - GNU utils like grep
-[[hasfields]] - test whether a struct has the same fields as a template
+  * [[gzip]] - console/shell interface for MATLAB (does NOT work on Windows!)
-[[heartbeats]] - detect heart beats and frequency in physio data
+  * [[hasfields]] - test whether a struct has the same fields as a template
-[[hexdump]] - dump hexadecimal values into string
+  * [[heartbeats]] - detect heart beats and frequency in physio data
-[[hrf]] - create canonical HRF shape
+  * [[hexdump]] - dump hexadecimal values into string
-[[hrfboost]] - assume that best fit is the (root of) sum of squares
+  * [[hrf]] - create canonical HRF shape
-[[hxdouble]] - transform a double from/into a readable string
+  * [[hrfboost]] - assume that best fit is the (root of) sum of squares
-[[hxsingle]] - transform a single from/into a readable string
+  * [[hxdouble]] - transform a double from/into a readable string
-[[icc]] - intraclass correlation calculation
+  * [[hxsingle]] - transform a single from/into a readable string
-[[idftextread]] - read a text-converted IDF file (iView X)
+  * [[icc]] - intraclass correlation calculation
-[[image_complexity]] - give image complexity estimate
+  * [[idftextread]] - read a text-converted IDF file (iView X)
-[[image_resize]] - resize a HxWxD numeric image to new measures
+  * [[image_complexity]] - give image complexity estimate
-[[importbesa]] - import EEG/MEG data from a set of BESA files
+  * [[image_resize]] - resize a HxWxD numeric image to new measures
-[[importfif]] - import FIF file
+  * [[importbesa]] - import EEG/MEG data from a set of BESA files
-[[importvtcfromanalyze]] - import an FMR from Analzye files
+  * [[importfif]] - import FIF file
-[[importrfxglmfromspms]] - import SPM beta maps to a BrainVoyager GLM file
+  * [[importvtcfromanalyze]] - import an FMR from Analzye files
-[[importvtcfromanalyze]] - import several Analzye SPM map files
+  * [[importrfxglmfromspms]] - import SPM beta maps to a BrainVoyager GLM file
-[[importvmrfromanalyze]] - import a VMR from an Analzye file
+  * [[importvtcfromanalyze]] - import several Analzye SPM map files
-[[importvtcfromanalyze]] - import a VTC from Analzye files
+  * [[importvmrfromanalyze]] - import a VMR from an Analzye file
-[[indepcorrz]] - independent correlation comparison z statistic
+  * [[importvtcfromanalyze]] - import a VTC from Analzye files
-[[initialalignment]] - perform the automatic IA
+  * [[indepcorrz]] - independent correlation comparison z statistic
-[[invsystem]] - inverts the output argument order of system(...)
+  * [[initialalignment]] - perform the automatic IA
-[[isabsolute]] - returns true if the given path is absolute
+  * [[invsystem]] - inverts the output argument order of system(...)
-[[isemptycell]] - returns a boolean array with isempty over cells
+  * [[isabsolute]] - returns true if the given path is absolute
-[[isinfnan]] - checking whether (any) element(s) are inf/nan
+  * [[isemptycell]] - returns a boolean array with isempty over cells (//MEX file stub/help//)
-[[isrealvarname]] - true for valid variable name
+  * [[isinfnan]] - checking whether (any) element(s) are inf/nan (//MEX file stub/help//)
-[[isscalarcell]] - returns a boolean array with isscalar over cells
+  * [[isrealvarname]] - true for valid variable name
-[[istransio]] - check (and validate) object
+  * [[isscalarcell]] - returns a boolean array with isscalar over cells (//MEX file stub/help//)
-[[isxff]] - check (and validate) object
+  * [[istransio]] - check (and validate) object
-[[isxfigure]] - perform validity check on input
+  * [[isxff]] - check (and validate) object
-[[isxini]] - perform validity check on input
+  * [[isxfigure]] - perform validity check on input
-[[joinlayers]] - joining of transimg layers into a HxWx3 image + alpha map
+  * [[isxini]] - perform validity check on input
-[[kendtau]] - returns the Kendall tau statistic for two vectors
+  * [[joinlayers]] - joining of transimg layers into a HxWx3 image + alpha map (//MEX file stub/help//)
-[[kendtaupairsign]] - return kendall tau ties-correction value
+  * [[kendtau]] - returns the Kendall tau statistic for two vectors
-[[kendtaut]] - give approximate t-score for kendall tau (via monte-carlo)
+  * [[kendtaupairsign]] - return kendall tau ties-correction value (//MEX file stub/help//)
-[[kendtauz]] - give approximate z-score for kendall tau (via formula)
+  * [[kendtaut]] - give approximate t-score for kendall tau (via monte-carlo)
-[[kurt]] - compute kurtosis of data
+  * [[kendtauz]] - give approximate z-score for kendall tau (via formula)
-[[limitrangec]] - limit data to a range
+  * [[kurt]] - compute kurtosis of data
-[[limittorange]] - limit data to percentile range
+  * [[limitrangec]] - limit data to a range (//MEX file stub/help//)
-[[linscale]] - linear scaling transform
+  * [[limittorange]] - limit data to percentile range
-[[lsqueeze]] - linear squeeze into Nx1 array
+  * [[linscale]] - linear scaling transform
-[[ltriasc]] - ASCII form of a lower triangle matrix (for Mx)
+  * [[lsqueeze]] - linear squeeze into Nx1 array
-[[madist]] - Mahalanobis distance of single data argument
+  * [[ltriasc]] - ASCII form of a lower triangle matrix (for Mx)
-[[mainver]] - get matlab main version
+  * [[madist]] - Mahalanobis distance of single data argument
-[[makelabel]] - returns a valid label from input
+  * [[mainver]] - get matlab main version
-[[mappvalue]] - convert stats to pvalue (signed)
+  * [[makelabel]] - returns a valid label from input
-[[maxgrad]] - return maximum direct neighbor gradient (diff) per voxel
+  * [[mappvalue]] - convert stats to pvalue (signed)
-maxpos - return not the max but only the pos (//deprecated, use minmaxmean instead//)
+  * [[maxgrad]] - return maximum direct neighbor gradient (diff) per voxel
-[[meannoinfnan]] - build mean of elements other than Inf/NaN
+  * maxpos - return not the max but only the pos (//deprecated, use minmaxmean instead//)
-[[meanpsctrans]] - perform PSC transformation after regression
+  * [[meannoinfnan]] - build mean of elements other than Inf/NaN
-[[medianc]] - picking the median of an array using quickselect
+  * [[meanpsctrans]] - perform PSC transformation after regression
-[[memusage]] - give the current memory usage of the calling function
+  * [[medianc]] - picking the median of an array using quickselect (//MEX file stub/help//)
-[[mergehemivmrs]] - merge segmented VMRs of LH and RH
+  * [[memusage]] - give the current memory usage of the calling function
-[[mesh_morph]] -  morph the coordinates of a mesh
+  * [[mergehemivmrs]] - merge segmented VMRs of LH and RH
-[[mesh_trianglestoneighbors]] - get mesh neighbors list from triangles
+  * [[mesh_morph]] -  morph the coordinates of a mesh (//MEX file stub/help//)
-[[mesh_trimapmesh]] - get triangular mapping for two spherical meshes
+  * [[mesh_trianglestoneighbors]] - get mesh neighbors list from triangles (//MEX file stub/help//)
-[[minarray]] - minimize array size
+  * [[mesh_trimapmesh]] - get triangular mapping for two spherical meshes (//MEX file stub/help//)
-[[minmaxbbox]] - get minimum, maximum bounding box of objects
+  * [[minarray]] - minimize array size
-[[minmaxmean]] - get min, max, and mean of data array (fast)
+  * [[minmaxbbox]] - get minimum, maximum bounding box of objects
-minpos - return not the min but only the pos (//deprecated, use minmaxmean instead//)
+  * [[minmaxmean]] - get min, max, and mean of data array (fast) (//MEX file stub/help//)
-[[mkadir]] - create an absolute directory (unlike to MATLAB's mkdir)
+  * minpos - return not the min but only the pos (//deprecated, use minmaxmean instead//)
-[[mltype]] - return Matlab's datatype association
+  * [[mkadir]] - create an absolute directory (unlike to MATLAB's mkdir)
-[[mni2tal]] - converts coordinates from MNI brain to best Talairach guess
+  * [[mltype]] - return Matlab's datatype association
-[[mpackage]] - MatLab Installation Package Generator
+  * [[mni2tal]] - converts coordinates from MNI brain to best Talairach guess
-[[mstrrep]] - replace multiple patterns (multi strrep)
+  * [[mpackage]] - MatLab Installation Package Generator
-[[mtc_concat]] - concatenate MTCs
+  * [[mstrrep]] - replace multiple patterns (multi strrep)
-multi_voi_avg - generate Multi-VOI averaging plots (//abandoned for now//)
+  * [[mtc_concat]] - concatenate MTCs
-[[multimatch]] - match two lists of strings and return matched in first
+  * multi_voi_avg - generate Multi-VOI averaging plots (//abandoned for now//)
-[[multiset]] - set properties for multiple handles
+  * [[multimatch]] - match two lists of strings and return matched in first
-[[multislicetovol]] - convert a multislice MxNx1 image file to a XxYxZ 3-D volume
+  * [[multiset]] - set properties for multiple handles
-[[ne_fastica]] - perform ICA with FastICA algorithm
+  * [[multislicetovol]] - convert a multislice MxNx1 image file to a XxYxZ 3-D volume
-[[neuroelf_build]] - return the build number of NeuroElf
+  * [[ne_fastica]] - perform ICA with FastICA algorithm
-[[neuroelf_file]] - return file contents
+  * [[neuroelf_build]] - return the build number of NeuroElf
-[[neuroelf_gui]] - the NeuroElf graphical user interface (GUI)
+  * [[neuroelf_file]] - return file contents
-[[neuroelf_license]] - display NeuroElf license
+  * [[neuroelf_gui]] - the NeuroElf graphical user interface (GUI)
-[[neuroelf_makelibs]] - compile MEX functions (mex/compiler needed!)
+  * [[neuroelf_license]] - display NeuroElf license
-[[neuroelf_pack]] - create installation/update/diff package
+  * [[neuroelf_makelibs]] - compile MEX functions (mex/compiler needed!)
-[[neuroelf_path]] - get path where NeuroElf is installed
+  * [[neuroelf_pack]] - create installation/update/diff package
-[[neuroelf_setup]] - NeuroElf post installation setup
+  * [[neuroelf_path]] - get path where NeuroElf is installed
-[[neuroelf_version]] - return the version of NeuroElf
+  * [[neuroelf_setup]] - NeuroElf post installation setup
-[[newnatresvmp]] - create natural resolution VMP object
+  * [[neuroelf_version]] - return the version of NeuroElf
-[[noinfnan]] - replace Inf/NaN's in input with replacement value
+  * [[newnatresvmp]] - create natural resolution VMP object
-[[normvecs]] - normalize vector lengths to 1
+  * [[noinfnan]] - replace Inf/NaN's in input with replacement value
-[[num2strtab]] - creates a tabular data output of a numeric data table
+  * [[normvecs]] - normalize vector lengths to 1
-[[orthimage]] - compute orthogonality matrix (for SPM like display)
+  * [[num2strtab]] - creates a tabular data output of a numeric data table (//MEX file stub/help//) **NOT FUNCTIONAL YET**
-[[orthsdm]] - orthogonalize SDM object in file
+  * [[orthimage]] - compute orthogonality matrix (for SPM like display)
-[[orthvec]] - cheap orthogonalization
+  * [[orthsdm]] - orthogonalize SDM object in file
-[[orthvecs]] - orthogonalize vectors against each other
+  * [[orthvec]] - cheap orthogonalization
-[[ostype]] - returns information about the currently used OS
+  * [[orthvecs]] - orthogonalize vectors against each other
-[[osz]] - returns ones(size(svzar))
+  * [[ostype]] - returns information about the currently used OS
-[[packmosaic]] - pack one dimension into one/two other(s)
+  * [[osz]] - returns ones(size(svzar))
-[[pairs]] - returns the pairs of values in a vector/matrix
+  * [[packmosaic]] - pack one dimension into one/two other(s)
-[[parseformula]] - parse a formula
+  * [[pairs]] - returns the pairs of values in a vector/matrix
-parsenumtable - parse a numeric table (//deprecated, use u8str2double instead//)
+  * [[parseformula]] - parse a formula
-[[parseopts]] - parse optional input arguments with defaults
+  * parsenumtable - parse a numeric table (//deprecated, use u8str2double instead//)
-[[partoanalyze75]] - convert PAR/REC into Analyze 7.5
+  * [[parseopts]] - parse optional input arguments with defaults
-[[pinvc]] - pseudo-inverse using svdc
+  * [[partoanalyze75]] - convert PAR/REC into Analyze 7.5
-[[plotcurves]] - plot different curves and select those of interest
+  * [[pinvc]] - pseudo-inverse using svdc
-[[pmfilter]] - apply a poly-mask bias filter to an image
+  * [[plotcurves]] - plot different curves and select those of interest
-pmpalignment - compute alignment PMPs (//abandoned for now//)
+  * [[pmfilter]] - apply a poly-mask bias filter to an image
-[[poolgroups]] - pool several sample groups into one stats analysis
+  * pmpalignment - compute alignment PMPs (//abandoned for now//)
-[[prefilter]] - spike/shift/resonance filter data
+  * [[poolgroups]] - pool several sample groups into one stats analysis
-primes_b - generate list of prime numbers (//abandoned for now//)
+  * [[prefilter]] - spike/shift/resonance filter data
-progresscount - display progress in console as a step based counter (//abandoned for now//)
+  * primes_b - generate list of prime numbers (//abandoned for now//)
-[[psctrans]] - perform PSC transformation on time course
+  * progresscount - display progress in console as a step based counter (//abandoned for now//)
-[[qsort]] - sorting of 1-D vectors
+  * [[psctrans]] - perform PSC transformation on time course
-[[ranktrans]] - return rank transform of data
+  * [[qsort]] - sorting of 1-D vectors (//MEX file stub/help//)
-[[rbalign]] - rigid-body alignment of one volume to a volume stack
+  * [[ranktrans]] - return rank transform of data
-[[readbesa]] - read in BESA export files for further processing
+  * [[rbalign]] - rigid-body alignment of one volume to a volume stack
-readhrv - reads a heart rate variability text file (//abandoned for now//)
+  * [[readbesa]] - read in BESA export files for further processing
-[[readpar]] - read a Philips PAR file
+  * readhrv - reads a heart rate variability text file (//abandoned for now//)
-[[regress_coords]] - find best matching quaternion t to match coordinates
+  * [[readpar]] - read a Philips PAR file
-[[relfilename]] - build relative filename from two given files
+  * [[regress_coords]] - find best matching quaternion t to match coordinates
-[[renamedicom]] - rename a dicom file according to a pattern
+  * [[relfilename]] - build relative filename from two given files
-[[renamefields]] - renames fields in a struct
+  * [[renamedicom]] - rename a dicom file according to a pattern
-[[renamefile]] - renames a file to another filename
+  * [[renamefields]] - renames fields in a struct
-render_vol - 3-D rendering of an spm_vol struct (//abandoned for now//)
+  * [[renamefile]] - renames a file to another filename
-[[renderlayers]] - rendering of transimg layers into a HxWx3 uint8 image
+  * render_vol - 3-D rendering of an spm_vol struct (//abandoned for now//)
-[[resampleaa]] - anti-aliased resampling of data
+  * [[renderlayers]] - rendering of transimg layers into a HxWx3 uint8 image (//MEX file stub/help//)
-[[rmean]] - re-weighted mean
+  * [[resampleaa]] - anti-aliased resampling of data
-[[robcorrcoef]] - robust correlation coefficient using bisquare weighting
+  * [[rmean]] - re-weighted mean
-[[robscatter]] - scatter data with option of robustfit
+  * [[robcorrcoef]] - robust correlation coefficient using bisquare weighting
-[[robustF]] - compute F scores given robust stats
+  * [[robscatter]] - scatter data with option of robustfit
-[[robustmean]] - robust mean estimation
+  * [[robustF]] - compute F scores given robust stats
-[[robustnsamplet]] - performs robust fit and computes t scores
+  * [[robustmean]] - robust mean estimation
-[[robustnsamplet_img]] - apply robust N-sample test to set of images
+  * [[robustnsamplet]] - performs robust fit and computes t scores
-[[robustt]] - compute t scores given robust stats
+  * [[robustnsamplet_img]] - apply robust N-sample test to set of images
-[[samplefmrspace]] - samples a data slab at a given set of coordinates
+  * [[robustt]] - compute t scores given robust stats
-[[safecon]] - safe contrast computation taking missing values into account
+  * [[samplefmrspace]] - samples a data slab at a given set of coordinates
-[[scaledata]] - automatically scale data between gray-scale boundaries
+  * [[safecon]] - safe contrast computation taking missing values into account
-[[scaleimage]] - automatically scale image data for image
+  * [[scaledata]] - automatically scale data between gray-scale boundaries
-[[sdist]] - statistics distributions
+  * [[scaleimage]] - automatically scale image data for image
-selectstruct - select from a struct with a clause (//abandoned for now//)
+  * [[sdist]] - statistics distributions
-[[setinfnantomean]] - set Inf/NaN in input to mean (over dim)
+  * selectstruct - select from a struct with a clause (//abandoned for now//)
-[[setinfnantoval]] - set Inf/NaN in input to specific values(s)
+  * [[setinfnantomean]] - set Inf/NaN in input to mean (over dim)
-[[showspmrparams]] - display the rp_*.txt files of an SPM preprocessing
+  * [[setinfnantoval]] - set Inf/NaN in input to specific values(s)
-[[showvtcsize]] - displays the sizes of VTCs found on the given path
+  * [[showspmrparams]] - display the rp_*.txt files of an SPM preprocessing
-[[shrinkfg]] - shrink foreground where no changes to topology are made
+  * [[showvtcsize]] - displays the sizes of VTCs found on the given path
-[[skew]] - compute skewness of data
+  * [[shrinkfg]] - shrink foreground where no changes to topology are made
-slydetrend - slyly detrends signal (//abandoned for now//)
+  * [[skew]] - compute skewness of data
-[[smoothdata3]] - apply gaussian smoothing to 3D data
+  * slydetrend - slyly detrends signal (//abandoned for now//)
-[[smoothest3d]] - estimate smoothness map of residual time course data
+  * [[smoothdata3]] - apply gaussian smoothing to 3D data
-[[smoothkern]] - build N-dim smoothing kernel from FWHM
+  * [[smoothest3d]] - estimate smoothness map of residual time course data
-[[smoothned]] - smooth non-equidistant data with a gaussian kernel
+  * [[smoothkern]] - build N-dim smoothing kernel from FWHM
-[[solvesudoku]] - solve a sudoku puzzle
+  * [[smoothned]] - smooth non-equidistant data with a gaussian kernel
-[[spatent]] - spatial entropy of map values
+  * [[solvesudoku]] - solve a sudoku puzzle
-[[spherecoords]] - compute spherical coordinates
+  * [[spatent]] - spatial entropy of map values
-[[spherecoordsinv]] - compute cartesian coordinates from spherical ones
+  * [[spherecoords]] - compute spherical coordinates
-[[spheresrf]] - create a new sphere SRF
+  * [[spherecoordsinv]] - compute cartesian coordinates from spherical ones
-[[spherevmr]] - create a 256x256x256 VMR for spherical region growing
+  * [[spheresrf]] - create a new sphere SRF
-[[splitclustercoords]] - split coords of one cluster to subclusters
+  * [[spherevmr]] - create a 256x256x256 VMR for spherical region growing
-[[splittocell]] - split a delimited string into a cell array
+  * [[splitclustercoords]] - split coords of one cluster to subclusters
-[[splittocellc]] - C-version of splittocell
+  * [[splittocell]] - split a delimited string into a cell array
-[[spm5_preprojobs]] - create jobs and jobhelps from options
+  * [[splittocellc]] - C-version of splittocell (//MEX file stub/help//)
-[[spmitrf]] - uncompile an affine transformation into paramters
+  * [[spm5_preprojobs]] - create jobs and jobhelps from options
-[[spmmat2prt]] - convert a SPM.mat file into BV's PRT file(s)
+  * [[spmitrf]] - uncompile an affine transformation into paramters
-[[spmmat2sdm]] - convert a SPM.mat file into BV's SDM file(s)
+  * [[spmmat2prt]] - convert a SPM.mat file into BV's PRT file(s)
-[[spmtrf]] - compile a transformation matrix as in spm
+  * [[spmmat2sdm]] - convert a SPM.mat file into BV's SDM file(s)
-srfalignment - align surface according to their folding patterns (//abandoned for now//)
+  * [[spmtrf]] - compile a transformation matrix as in spm
-srfbvxalign - perform alignment of SRFs in a BVX file (//abandoned for now//)
+  * srfalignment - align surface according to their folding patterns (//abandoned for now//)
-[[structdiff]] - compare two structures
+  * srfbvxalign - perform alignment of SRFs in a BVX file (//abandoned for now//)
-[[subclusters]] - separate mega cluster into sub-clusters
+  * [[structdiff]] - compare two structures
-[[subget]] - get a list of properties as a struct
+  * [[subclusters]] - separate mega cluster into sub-clusters
-[[svdc]] - singular value decomposition
+  * [[subget]] - get a list of properties as a struct
-[[svmpredict]] - train libSVM based classifier
+  * [[svdc]] - singular value decomposition (//MEX file stub/help//)
-[[svmtrain]] - train libSVM based classifier
+  * [[svmpredict]] - train libSVM based classifier (//MEX file stub/help//)
-[[tablesextract]] - create tables and extracts from GLM/VMPs
+  * [[svmtrain]] - train libSVM based classifier (//MEX file stub/help//)
-[[tal2acpc]] - convert TAL coordinates into AC-PC coordinates
+  * [[tablesextract]] - create tables and extracts from GLM/VMPs
-[[tal2mni]] - converts coordinates from TAL brain to best MNI-space guess
+  * [[tal2acpc]] - convert TAL coordinates into AC-PC coordinates
-tcchecksum - checksum using textcrypt (not reliable for binary data) (//abandoned for now//)
+  * [[tal2mni]] - converts coordinates from TAL brain to best MNI-space guess
-tcpdump_parse - parse tcpdump outfile (-w) file (//abandoned for now//)
+  * tcchecksum - checksum using textcrypt (not reliable for binary data) (//abandoned for now//)
-[[tcplot]] - plot timecourse data
+  * tcpdump_parse - parse tcpdump outfile (-w) file (//abandoned for now//)
-[[tdclient]] - send request to internet TDdatabase / local TD
+  * [[tcplot]] - plot timecourse data
-[[tdlabel]] - get NGM label of coordinate
+  * [[tdclient]] - send request to internet TDdatabase / local TD
-[[tdlocal2]] - lookup local TD NiFTi image file for TalLabel
+  * [[tdlabel]] - get NGM label of coordinate
-[[tempfilter]] - filter temporal data
+  * [[tdlocal2]] - lookup local TD NiFTi image file for TalLabel
-[[textcrypt]] - en/decrypt a text message with a rotating key matrix
+  * [[tempfilter]] - filter temporal data
-[[textline]] - one line from a multi-line 1xN char array
+  * [[textcrypt]] - en/decrypt a text message with a rotating key matrix
-[[tfgparse]] - parses a xfigure TFG file into a struct
+  * [[textline]] - one line from a multi-line 1xN char array
-[[tfmatrix]] - build 4x4 transformation matrix for different steps
+  * [[tfgparse]] - parses a xfigure TFG file into a struct
-[[threshlutc]] - converting thresholded map to looked up colors
+  * [[tfmatrix]] - build 4x4 transformation matrix for different steps
-[[threshmapc]] - thresholding a double map to 0...1
+  * [[threshlutc]] - converting thresholded map to looked up colors (//MEX file stub/help//)
-[[transmul]] - return the multiplication of M' * M
+  * [[threshmapc]] - thresholding a double map to 0...1 (//MEX file stub/help//)
-[[u8str2double]] - convert numeric text (of multi-value data) to double
+  * [[transmul]] - return the multiplication of M' * M (//MEX file stub/help//)
-[[uint322colcode]] - convert from uint32 to colcode array
+  * [[u8str2double]] - convert numeric text (of multi-value data) to double (//MEX file stub/help//)
-[[unpackmosaic]] - unpack mosaic from two dimensions into third
+  * [[uint322colcode]] - convert from uint32 to colcode array
-[[unzerostring]] - removed string part after first (or last) zero
+  * [[unpackmosaic]] - unpack mosaic from two dimensions into third
-[[utc]] - return utc-like time code (uint32)
+  * [[unzerostring]] - removed string part after first (or last) zero
-[[uunion]] - unsorted set union.
+  * [[utc]] - return utc-like time code (uint32)
-[[varc]] - calculation of variance along dimension
+  * [[uunion]] - unsorted set union.
-[[vmrspmcoreg]] - apply SPM's coregistration to two VMRs
+  * [[varc]] - calculation of variance along dimension (//MEX file stub/help//)
-[[vmvreadpos]] - read one vertex movie position in a VMV file
+  * [[vmrspmcoreg]] - apply SPM's coregistration to two VMRs
-[[vmvwritepos]] - write one vertex movie position in a VMV file
+  * [[vmvreadpos]] - read one vertex movie position in a VMV file
-[[vtc_concat]] - concatenate VTCs
+  * [[vmvwritepos]] - write one vertex movie position in a VMV file
-[[winsorize]] - Winsorize data (to numbers of SD by numbers of passes)
+  * [[vtc_concat]] - concatenate VTCs
-writestcfiles - create STC files from a 4D array (//abandoned for now//)
+  * [[winsorize]] - Winsorize data (to numbers of SD by numbers of passes)
-xffcompare - compares two xff objects (or folders with files) (//abandoned for now//)
+  * writestcfiles - create STC files from a 4D array (//abandoned for now//)
-[[xffsrfparseneighbors]] - parse neighbors from SRF file
+  * xffcompare - compares two xff objects (or folders with files) (//abandoned for now//)
-[[xffsrfwriteneighbors]] - write neighbors to SRF file
+  * [[xffsrfparseneighbors]] - parse neighbors from SRF file (//MEX file stub/help//)
-[[xfigurecallback]] - make sure a callback has its own workspace
+  * [[xffsrfwriteneighbors]] - write neighbors to SRF file (//MEX file stub/help//)
-[[zerodstring]] - fill a string with zero chars and fix length
+  * [[xfigurecallback]] - make sure a callback has its own workspace
-[[zsz]] - returns zeros(size(svzar))
+  * [[zerodstring]] - fill a string with zero chars and fix length
-[[ztrans]] - perform z-transformation on time course
+  * [[zsz]] - returns zeros(size(svzar))
+  * [[ztrans]] - perform z-transformation on time course
+===== Toolbox base folder, C-based functions =====
+  * clustercoordsc.c
+  * conv3d.c
+  * cov_nd.c
+  * findfirst.c
+  * flexinterpn.c
+  * flexmask.c
+  * floodfill3c.c
+  * gluetostringc.c
+  * isemptycell.c
+  * isinfnan.c
+  * isscalarcell.c
+  * joinlayers.c
+  * kendtaupairsign.c
+  * limitrangec.c
+  * medianc.c
+  * mesh_morph.c
+  * mesh_trianglestoneighbors.c
+  * mesh_trimapmesh.c
+  * minmaxmean.c
+  * normcdfc.c
+  * num2strtab.c
+  * qsort.c
+  * renderlayers.c
+  * splittocellc.c
+  * svdc.c
+  * svmpredictc.c
+  * svmtrainc.c
+  * threshlutc.c
+  * threshmapc.c
+  * transmul.c
+  * u8str2double.c
+  * varc.c
+  * xffsrfparseneighborsc.c
+  * xffsrfwriteneighborsc.c
+===== transimg functions =====
+===== transio functions =====
+===== xff functions =====
+==== xff private functions (methods) ====
+===== xfigure functions =====
+===== xini functions =====
+===== xprogress functions =====