neuroelf_-_all_functions
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Table of Contents
NeuroElf - all functions
Toolbox base folder, M-file list only
- acpc2tal - convert AC-PC coordinates into TAL coordinates
- acsvread - reads a text based (non-numeric) csv file
- afni_parse - internal parser for AFNI HEADer file structures
- alphasim - simulate noise data to estimate cluster threshold
- analyze_setendian - set endian type for Analyze files
- analyzetype - return properties of analyze image datatype
- any2ascii - packs simple as well as complex variables into ascii
- applybvtrf - apply BV transformation matrix to system coords
- applyfdr - apply FDR thresholding to given statistic
- asciiread - reads a textfile into one char array
- asciitab - create custom ASCII representation of 2-D matrix
- asciiwrite - writes a textfile from a char array to file
- autocorr - estimate auto-correlation in data
- averagepmps - average PMP objects and create new object (abandoned for now)
- averagevmrs - average VMRs
- barycoord - returns barycentric coordinates of point vs. triangle
- bcc2area - lookup TalairachBrain.vmr color codes
- binread - reads a binary into one uint8 array
- binwrite - writes a binary stream from a char/uint8 array to file
- bitdump - dump bits in a uint buffer (abandoned for now)
- bvcoordconv - converting coordinates for BV
- bvtrf - compile a transformation matrix as in the 3D volume tools
- bvxaddvartofile - add a variable to an existing BVX file (abandoned for now)
- bvxcreatefile - create new BVX file (abandoned for now)
- calcbetas - perform GLM regression
- checkstruct - check an 1×1 struct for validity
- checksyntax - checks a snippet of code for syntax validity
- clearxffobjects - issue ClearObject call on several objects
- clustercoords - get list of clusters in volume
- clustercoordsc - get list of clusters in volume (MEX file stub/help)
- clustermeshmap - cluster a SMP/SRF based map
- clustermeshmapbin - cluster binary mesh-based map
- clustervol - cluster volume with threshold
- clustervol_struct - create cluster struct (cell array) for TW tools
- colcode2uint32 - convert from colcode to uint32 array
- colorpicker - pick a color from the RGB/HSV color space
- computehrv - compute HRV from onsets
- conjval - conjugate value (same sign, min abs value with sign)
- conjvalp - conjugate pvalues (same sign, max value with sign)
- conv3d - perform 3D convolution (MEX file stub/help)
- convones - convoles a function with a number of consecutive ones
- correlinvtstat - convert t-statistic into correlation value
- correlpvalue - pvalue of correlation coefficient
- correltstat - convert correlation value into t-statistic
- corrmap - correlation map
- cov_nd - computes covariance and corrcoefs for vector pairs in N-D (MEX file stub/help)
- cpfile - copies a file (deprecated! use copyfile instead)
- crawford_abnorm - calculate Crawford's score abnormality measure (abandoned for now)
- crawford_diff - calculate Crawford's single case t-score (abandoned for now)
- crawford_diss - calculate Crawford's single case dissociation t-score (abandoned for now)
- createfmr - create a FMR from a set of IMA/DCM files
- createmarkervmp - create a VMP map with markers (electrode indicators)
- createsrf - create a SRF object from coordinates and triangles
- createvmr - create a VMR from a set of IMA/DCM files
- csvdbupdate - update the data field from CSV files
- custom_pwelch - compute Welch's periodogram power spectrum
- cutnpastemovie - create an AVI movie from bitmap files (abandoned for now)
- ddeblank - deblank on both ends of strings
- degclust - degree of clustering of data
- depcorrt - dependent correlation comparison t statistic
- detecthandles - detect handles in 3D segmentation (abandoned for now)
- detecthandles_o - detect handles in 3D segmentation (abandoned for now)
- dicom4todmr - cheap try to convert a DICOM4 file into DMR/DWI
- dicom4tofmr - cheap try to convert a DICOM4 file into FMR/STC
- dilate3d - perform 3D dilation with operator
- dispslice - displays a 2-D dataset as an image
- dispslicemovie - display slice movie
- emptysrf - create an empty surface container
- erode - perform 3D erosion with operator
- exceltocoords - converts MS-Excel notation into 1×4 double array
- extcaller - from where was a call issued
- fdr_thresholds - compute probability thresholds for q(FDR) levels
- fendian - return an argument suitable for fopen (endianess)
- fileguessendian - guess endian type of (partial) file content
- filesize - return a file's size in bytes
- fileswapendian - swap endian type of (partial) file content
- findfiledir - find a named file or directory
- findfiles - Linux/UNIX-like find command/function
- findfirst - find first (or last) element != 0 in input (MEX file stub/help)
- fisherr2z - convert Pearson correlation into z values
- fitrobustbisquare - faster fitting function for robust bisquare
- fitrobustbisquare_img - faster fitting function for robust bisquare
- flexinterpn - flexible data interpolation (up to 4D) (MEX file stub/help)
- flexinterpn_demo - demonstration of flexinterpn
- flexinterpn_method - call flexinterpn with one of the typical methods
- flexmask - flexible data masking (MEX file stub/help)
- floodfill3 - keep adjacent values from seed point
- fmriqasheet - create figure with output of fmriquality
- fmriquality - get some quality assurance for fMRI data
- gammapdf - gamma distribution Probability Density Function (PDF)
- glmtstat - compute GLM t statistic
- gluetostring - glues a cell array of chars to one delimited char array
- gluetostringc - C-version of gluetostring (MEX file stub/help)
- gradsmooth - apply gradient based smoothing (abandoned for now)
- grep - GNU utils like grep
- gzip - console/shell interface for MATLAB (does NOT work on Windows!)
- hasfields - test whether a struct has the same fields as a template
- heartbeats - detect heart beats and frequency in physio data
- hexdump - dump hexadecimal values into string
- hrf - create canonical HRF shape
- hrfboost - assume that best fit is the (root of) sum of squares
- hxdouble - transform a double from/into a readable string
- hxsingle - transform a single from/into a readable string
- icc - intraclass correlation calculation
- idftextread - read a text-converted IDF file (iView X)
- image_complexity - give image complexity estimate
- image_resize - resize a HxWxD numeric image to new measures
- importbesa - import EEG/MEG data from a set of BESA files
- importfif - import FIF file
- importvtcfromanalyze - import an FMR from Analzye files
- importrfxglmfromspms - import SPM beta maps to a BrainVoyager GLM file
- importvtcfromanalyze - import several Analzye SPM map files
- importvmrfromanalyze - import a VMR from an Analzye file
- importvtcfromanalyze - import a VTC from Analzye files
- indepcorrz - independent correlation comparison z statistic
- initialalignment - perform the automatic IA
- invsystem - inverts the output argument order of system(…)
- isabsolute - returns true if the given path is absolute
- isemptycell - returns a boolean array with isempty over cells (MEX file stub/help)
- isinfnan - checking whether (any) element(s) are inf/nan (MEX file stub/help)
- isrealvarname - true for valid variable name
- isscalarcell - returns a boolean array with isscalar over cells (MEX file stub/help)
- istransio - check (and validate) object
- isxff - check (and validate) object
- isxfigure - perform validity check on input
- isxini - perform validity check on input
- joinlayers - joining of transimg layers into a HxWx3 image + alpha map (MEX file stub/help)
- kendtau - returns the Kendall tau statistic for two vectors
- kendtaupairsign - return kendall tau ties-correction value (MEX file stub/help)
- kendtaut - give approximate t-score for kendall tau (via monte-carlo)
- kendtauz - give approximate z-score for kendall tau (via formula)
- kurt - compute kurtosis of data
- limitrangec - limit data to a range (MEX file stub/help)
- limittorange - limit data to percentile range
- linscale - linear scaling transform
- lsqueeze - linear squeeze into Nx1 array
- ltriasc - ASCII form of a lower triangle matrix (for Mx)
- madist - Mahalanobis distance of single data argument
- mainver - get matlab main version
- makelabel - returns a valid label from input
- mappvalue - convert stats to pvalue (signed)
- maxgrad - return maximum direct neighbor gradient (diff) per voxel
- maxpos - return not the max but only the pos (deprecated, use minmaxmean instead)
- meannoinfnan - build mean of elements other than Inf/NaN
- meanpsctrans - perform PSC transformation after regression
- medianc - picking the median of an array using quickselect (MEX file stub/help)
- memusage - give the current memory usage of the calling function
- mergehemivmrs - merge segmented VMRs of LH and RH
- mesh_morph - morph the coordinates of a mesh (MEX file stub/help)
- mesh_trianglestoneighbors - get mesh neighbors list from triangles (MEX file stub/help)
- mesh_trimapmesh - get triangular mapping for two spherical meshes (MEX file stub/help)
- minarray - minimize array size
- minmaxbbox - get minimum, maximum bounding box of objects
- minmaxmean - get min, max, and mean of data array (fast) (MEX file stub/help)
- minpos - return not the min but only the pos (deprecated, use minmaxmean instead)
- mkadir - create an absolute directory (unlike to MATLAB's mkdir)
- mltype - return Matlab's datatype association
- mni2tal - converts coordinates from MNI brain to best Talairach guess
- mpackage - MatLab Installation Package Generator
- mstrrep - replace multiple patterns (multi strrep)
- mtc_concat - concatenate MTCs
- multi_voi_avg - generate Multi-VOI averaging plots (abandoned for now)
- multimatch - match two lists of strings and return matched in first
- multiset - set properties for multiple handles
- multislicetovol - convert a multislice MxNx1 image file to a XxYxZ 3-D volume
- ne_fastica - perform ICA with FastICA algorithm
- neuroelf_build - return the build number of NeuroElf
- neuroelf_file - return file contents
- neuroelf_gui - the NeuroElf graphical user interface (GUI)
- neuroelf_license - display NeuroElf license
- neuroelf_makelibs - compile MEX functions (mex/compiler needed!)
- neuroelf_pack - create installation/update/diff package
- neuroelf_path - get path where NeuroElf is installed
- neuroelf_setup - NeuroElf post installation setup
- neuroelf_version - return the version of NeuroElf
- newnatresvmp - create natural resolution VMP object
- noinfnan - replace Inf/NaN's in input with replacement value
- normvecs - normalize vector lengths to 1
- num2strtab - creates a tabular data output of a numeric data table (MEX file stub/help) NOT FUNCTIONAL YET
- orthimage - compute orthogonality matrix (for SPM like display)
- orthsdm - orthogonalize SDM object in file
- orthvec - cheap orthogonalization
- orthvecs - orthogonalize vectors against each other
- ostype - returns information about the currently used OS
- osz - returns ones(size(svzar))
- packmosaic - pack one dimension into one/two other(s)
- pairs - returns the pairs of values in a vector/matrix
- parseformula - parse a formula
- parsenumtable - parse a numeric table (deprecated, use u8str2double instead)
- parseopts - parse optional input arguments with defaults
- partoanalyze75 - convert PAR/REC into Analyze 7.5
- pinvc - pseudo-inverse using svdc
- plotcurves - plot different curves and select those of interest
- pmfilter - apply a poly-mask bias filter to an image
- pmpalignment - compute alignment PMPs (abandoned for now)
- poolgroups - pool several sample groups into one stats analysis
- prefilter - spike/shift/resonance filter data
- primes_b - generate list of prime numbers (abandoned for now)
- progresscount - display progress in console as a step based counter (abandoned for now)
- psctrans - perform PSC transformation on time course
- qsort - sorting of 1-D vectors (MEX file stub/help)
- ranktrans - return rank transform of data
- rbalign - rigid-body alignment of one volume to a volume stack
- readbesa - read in BESA export files for further processing
- readhrv - reads a heart rate variability text file (abandoned for now)
- readpar - read a Philips PAR file
- regress_coords - find best matching quaternion t to match coordinates
- relfilename - build relative filename from two given files
- renamedicom - rename a dicom file according to a pattern
- renamefields - renames fields in a struct
- renamefile - renames a file to another filename
- render_vol - 3-D rendering of an spm_vol struct (abandoned for now)
- renderlayers - rendering of transimg layers into a HxWx3 uint8 image (MEX file stub/help)
- resampleaa - anti-aliased resampling of data
- rmean - re-weighted mean
- robcorrcoef - robust correlation coefficient using bisquare weighting
- robscatter - scatter data with option of robustfit
- robustF - compute F scores given robust stats
- robustmean - robust mean estimation
- robustnsamplet - performs robust fit and computes t scores
- robustnsamplet_img - apply robust N-sample test to set of images
- robustt - compute t scores given robust stats
- samplefmrspace - samples a data slab at a given set of coordinates
- safecon - safe contrast computation taking missing values into account
- scaledata - automatically scale data between gray-scale boundaries
- scaleimage - automatically scale image data for image
- sdist - statistics distributions
- selectstruct - select from a struct with a clause (abandoned for now)
- setinfnantomean - set Inf/NaN in input to mean (over dim)
- setinfnantoval - set Inf/NaN in input to specific values(s)
- showspmrparams - display the rp_*.txt files of an SPM preprocessing
- showvtcsize - displays the sizes of VTCs found on the given path
- shrinkfg - shrink foreground where no changes to topology are made
- skew - compute skewness of data
- slydetrend - slyly detrends signal (abandoned for now)
- smoothdata3 - apply gaussian smoothing to 3D data
- smoothest3d - estimate smoothness map of residual time course data
- smoothkern - build N-dim smoothing kernel from FWHM
- smoothned - smooth non-equidistant data with a gaussian kernel
- solvesudoku - solve a sudoku puzzle
- spatent - spatial entropy of map values
- spherecoords - compute spherical coordinates
- spherecoordsinv - compute cartesian coordinates from spherical ones
- spheresrf - create a new sphere SRF
- spherevmr - create a 256x256x256 VMR for spherical region growing
- splitclustercoords - split coords of one cluster to subclusters
- splittocell - split a delimited string into a cell array
- splittocellc - C-version of splittocell (MEX file stub/help)
- spm5_preprojobs - create jobs and jobhelps from options
- spmitrf - uncompile an affine transformation into paramters
- spmmat2prt - convert a SPM.mat file into BV's PRT file(s)
- spmmat2sdm - convert a SPM.mat file into BV's SDM file(s)
- spmtrf - compile a transformation matrix as in spm
- srfalignment - align surface according to their folding patterns (abandoned for now)
- srfbvxalign - perform alignment of SRFs in a BVX file (abandoned for now)
- structdiff - compare two structures
- subclusters - separate mega cluster into sub-clusters
- subget - get a list of properties as a struct
- svdc - singular value decomposition (MEX file stub/help)
- svmpredict - train libSVM based classifier (MEX file stub/help)
- svmtrain - train libSVM based classifier (MEX file stub/help)
- tablesextract - create tables and extracts from GLM/VMPs
- tal2acpc - convert TAL coordinates into AC-PC coordinates
- tal2mni - converts coordinates from TAL brain to best MNI-space guess
- tcchecksum - checksum using textcrypt (not reliable for binary data) (abandoned for now)
- tcpdump_parse - parse tcpdump outfile (-w) file (abandoned for now)
- tcplot - plot timecourse data
- tdclient - send request to internet TDdatabase / local TD
- tdlabel - get NGM label of coordinate
- tdlocal2 - lookup local TD NiFTi image file for TalLabel
- tempfilter - filter temporal data
- textcrypt - en/decrypt a text message with a rotating key matrix
- textline - one line from a multi-line 1xN char array
- tfgparse - parses a xfigure TFG file into a struct
- tfmatrix - build 4×4 transformation matrix for different steps
- threshlutc - converting thresholded map to looked up colors (MEX file stub/help)
- threshmapc - thresholding a double map to 0…1 (MEX file stub/help)
- transmul - return the multiplication of M' * M (MEX file stub/help)
- u8str2double - convert numeric text (of multi-value data) to double (MEX file stub/help)
- uint322colcode - convert from uint32 to colcode array
- unpackmosaic - unpack mosaic from two dimensions into third
- unzerostring - removed string part after first (or last) zero
- utc - return utc-like time code (uint32)
- uunion - unsorted set union.
- varc - calculation of variance along dimension (MEX file stub/help)
- vmrspmcoreg - apply SPM's coregistration to two VMRs
- vmvreadpos - read one vertex movie position in a VMV file
- vmvwritepos - write one vertex movie position in a VMV file
- vtc_concat - concatenate VTCs
- winsorize - Winsorize data (to numbers of SD by numbers of passes)
- writestcfiles - create STC files from a 4D array (abandoned for now)
- xffcompare - compares two xff objects (or folders with files) (abandoned for now)
- xffsrfparseneighbors - parse neighbors from SRF file (MEX file stub/help)
- xffsrfwriteneighbors - write neighbors to SRF file (MEX file stub/help)
- xfigurecallback - make sure a callback has its own workspace
- zerodstring - fill a string with zero chars and fix length
- 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
neuroelf_-_all_functions.1277182747.txt.gz · Last modified: 2010/06/22 04:59 by jochen