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Justin Gardner (2025). mrTools (https://github.com/justingardner/mrTools/releases/tag/v4.8), GitHub. Retrieved .
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mrAlign
- checkAlignment
 - checkAlignmentGUI
 - computeAlignment
 - errGaussRob
 - exportTal2mrLR
 - getAlignGUI
 - getGuiXform
 - hist2
 - intensityContrastCorrection
 - interpVolume
 - mrAlign.m
 - mrAlignGUI
 - mrReduceVolume
 - mutualInformation
 - refreshAlignDisplay
 - setAlignGUI
 - talairach
 
mrLoadRet
mrLoadRet/Analysis
- calcDist
 - defaultMergeParams
 - defaultReconcileParams
 - dummyAnalysis
 - dummyAnalysisGUI
 - dummyAnalysisMergeParams
 - dummyAnalysisReconcileParams
 - erCorrelationPlot
 - makeCorrelationMap
 - makeFlat
 - mlrComputeAtlasMean
 - mlrFixDescriptionInParams
 - mrParamsReconcile
 - newAnalysis
 - projectOutMeanVector
 - projectOutMeanVectorParams
 - projectOutMeanVectorPlot
 - searchForVoxel
 - timeSeriesStats
 - timeSeriesStatsPlot
 - transformStatistic
 
mrLoadRet/Analysis/AverageTSeries
mrLoadRet/Analysis/ConcatTSeries
mrLoadRet/Analysis/CorAnal
mrLoadRet/Analysis/EventRelated
- eventRelated
 - eventRelatedContrast
 - eventRelatedDetrend
 - eventRelatedGUI
 - eventRelatedGlm
 - eventRelatedGlmGUI
 - eventRelatedHighpass
 - eventRelatedMultiple
 - eventRelatedPlot
 - eventRelatedPreProcess
 - eventRelatedReconcileParams
 - eventRelatedTSeries
 - gauss
 - getEventRelatedVarname
 - getGlmContrast
 - getNumSlicesAtATime
 - getStimvol
 - getfirstvol
 - gethdr
 - getr2
 - getr2timecourse
 - glmContrastPlot
 - hrfDiffGamma
 - loadScan
 - makeglm
 - makescm
 - stimValsFromNames
 - stimconv
 
mrLoadRet/Analysis/MotionComp
- dispmotioncorrect
 - intensityContrastCorrection
 - motionComp
 - motionCompBetweenScans
 - motionCompGUI
 - motionCompGUI
 - motionCompGUImrParams
 - motionCompGetMask
 - motionCompPreprocessing
 - motionCompReconcileParams
 - motionCompWithinScan
 - sliceTimeCorrect
 
mrLoadRet/Analysis/QuickAnalysis
mrLoadRet/Analysis/SignalProc
mrLoadRet/Edit
mrLoadRet/File
- baseInfo
 - countNiftiFiles
 - deleteScans
 - dicomInfo
 - groupInfo
 - importFlatOFF
 - importGroupScans
 - importOverlay
 - importSurfaceOFF
 - importTSeries
 - loadAnalysis
 - loadAnat
 - loadFlat
 - loadOverlay
 - loadROI
 - loadROITSeries
 - loadSession
 - loadSurfOFF
 - loadTSeries
 - loadVFF
 - makeEmptyMLRDir
 - mlrExportForAnalysis
 - mlrExportOFF
 - mlrExportROI
 - mlrExportSurface
 - mlrFixPermissions
 - mlrLoadLastView
 - mr3to4
 - mr4to3
 - mrCleanDir
 - mrExport2SR.m
 - overlayInfo
 - reshapeTSeries
 - saveAnalysis
 - saveAnat
 - saveNewTSeries
 - saveOverlay
 - saveROI
 - saveSession
 - saveSform
 - saveTSeries
 - saveVFF
 - scanInfo
 - writeOFF
 
mrLoadRet/GUI
- addBaseOverlays
 - closeGraphWin
 - computeOverlay
 - getBaseSlice
 - getBaseSpaceOverlay
 - getNewSpaceOverlay
 - maskOverlay
 - mlrAdjustGUI
 - mlrGetFignum
 - mlrGetMouseCoords
 - mlrGuiSet
 - mlrIsRunning
 - mlrSetRotate3d
 - mlrSwapSession
 - mrAcceleratorKeys
 - mrFlatViewer
 - mrInterrogator
 - mrLoadRetGUI
 - mrMoveWindow
 - mrParamsDialogSelectScans
 - mrPrint
 - mrQuit
 - mrSaveView
 - mrSurfViewer
 - newGraphWin
 - refreshMLRDisplay
 - selectAnalyses
 - selectGraphWin
 - selectInList.m
 - selectOverlays
 - selectScans
 - setMLRViewAngle
 
mrLoadRet/Init
mrLoadRet/Plot
- mlrDisplayEPI
 - mlrSpikeDetector
 - plotMeanFourierAmp
 - plotMeanOfMeanTSeries
 - plotMeanTSeries
 - timecoursePlot
 
mrLoadRet/Plugin
mrLoadRet/Plugin/Default
mrLoadRet/Plugin/GLM_v2
- GLM_v2Plugin
 - applyMotionCompTransform.m
 - combineTransformOverlays
 - copyOverlay
 - mrSliceExport
 - pasteOverlay
 - renderIn3D
 - transformROIs
 
mrLoadRet/Plugin/GLM_v2/combineTransformOverlayFunctions
- PtoZ
 - clusterComMax
 - coherenceToP
 - fdrAdjustment
 - hardThreshold
 - indexMax
 - indexMin
 - maskAwithB
 - maskBwithA
 - maskWithLast
 - multipleTestsAdjustment
 - rmHotellingT2
 - spatialSmooth
 - weightedMeanStd
 
mrLoadRet/Plugin/GLM_v2/interrogatorFunctions
- computeImageSNR
 - computeTemporalSNR
 - dummyInterrogator
 - findMaxRoi
 - findMaxRoi
 - hdrSingleValue
 - roiBaseOverlayPlot
 - roiHistogram
 - roisConfidenceInterval
 
mrLoadRet/Plugin/GLM_v2/newGlmAnalysis
- applyFslTFCE
 - computeNormalEquations.m
 - convertOldGlmParams
 - doubleResampleFWE
 - enforceMonotonicityResampleFWE
 - estimateNumberTrueH0
 - fweAdjust
 - getEstimates
 - getGlmAdvancedStatisticParamsGUI
 - getGlmEVParamsGUI
 - getGlmScanParamsGUI
 - getGlmStatistics
 - getGlmTestParamsGUI
 - getRoisBox
 - glmAnalysis.m
 - glmAnalysisGUI.m
 - glmPlot
 - hrfBoxcar
 - hrfDeconvolution
 - hrfDoubleGamma
 - hrfFslFlobs
 - initResampleFWE
 - loadScanRois
 - makeAcm
 - makeContrastNames
 - makeDesignMatrix
 - plotStims
 - resampleFWE
 - stimCell2Mat
 - testDesignMatrix
 
mrLoadRet/Plugin/GLM_v2/transformROIFunctions
mrLoadRet/Plugin/mlrAnatomy
mrLoadRet/Plugin/pRF
mrLoadRet/PluginAlt/Nottingham/classificationAnalysis
- binomTest
 - boxCar
 - classificationAnalysisPlugin
 - classifyWithSvm
 - corticalSearchlight
 - erRoiClassGUI
 - eventRelatedROIClassification
 - getClassEVParamsGUI
 - getClassEventParamsGUI
 - getClassVarname
 - getsvm_nottingham_copy
 - roiClassGUI
 - roiClassification
 - searchlightClassGUI
 - searchlightClassification
 - selectSortOverlay
 - surfaceClassGUI
 - transformStatistic
 
mrLoadRet/PluginAlt/Nottingham/fsl
- fslApplyWarp
 - fslApplyWarpCoords
 - fslApplyWarpOverlays
 - fslApplyWarpROI
 - fslApplyWarpSurfOFF
 - fslFugueTSeries
 - fslFugueTSeriesGUI
 - fslFugueTSeriesReconcileParams
 - fslPlugin
 
mrLoadRet/PluginAlt/Nottingham/viewGUI
mrLoadRet/PluginAlt/mlrAnatDB
- mlrAnatDBCheckHg
 - mlrAnatDBGetBranchNum
 - mlrAnatDBGetPRF
 - mlrAnatDBGetPRFROI
 - mlrAnatDBGetRepo
 - mlrAnatDBGetUsername
 - mlrAnatDBInLocalRepo
 - mlrAnatDBPlugin
 - mlrAnatDBPreferences
 - mlrAnatDBPush
 - mlrAnatDBPut
 - mlrAnatDBSetBranchNum
 - mlrAnatDBSubjectID
 
mrLoadRet/PluginAlt/mlrLife
mrLoadRet/PluginAlt/modelCoranalFromGlm
mrLoadRet/ROI
- combineROIs
 - convertROI
 - convertROICorticalDepth
 - dijkstrap
 - drawROI
 - drawSurfaceROI
 - findLinePoints
 - findROI
 - getROICoordinates
 - getROICoordinatesMatching
 - importROI
 - makeEmptyROI
 - mlrGetPathBetween
 - mlrGetptsSurface
 - mlrROI2surf
 - modifyROI
 - newROI
 - pred2path
 - restrictROI
 - roiInfo
 - xformROIcoords
 
mrLoadRet/View
- deleteView
 - getMLRView
 - isanalysis
 - isbase
 - isgroup
 - isoverlay
 - isroi
 - isscan
 - isview
 - makeEmptyView
 - mlrMakeAnalysis
 - mrOpenWindow
 - newView
 - shiftOriginXform
 - viewGet
 - viewSet
 
mrLoadRet/colormapFunctions
- bicolorCmap
 - blue
 - blue2
 - cmapExtendedHSV
 - cmapHSV
 - coolCmap
 - crimson
 - grayCirc
 - green
 - hotColdCmap
 - hsvDoubleCmap
 - magenta
 - modifiedHot
 - orange
 - overlapCmap
 - purple
 - red
 - redGreenCmap
 - rygbCmap
 - statsColorMap
 - twoCondCircCmap
 - twoCondCmap
 
mrUtilities/File
mrUtilities/File/Caret
mrUtilities/File/Dicom
mrUtilities/File/FreeSurfer
- freeSurfer2off
 - freesurfer_fread3
 - freesurfer_load_xfm
 - freesurfer_read_curv
 - freesurfer_read_surf
 - mlrGetSurfaceNames
 - mlrImportFreeSurfer
 - mlrImportFreesurferLabel
 
mrUtilities/File/Glasser
mrUtilities/File/Nifti
- Contents.m
 - cbiCreateNiftiHeader
 - cbiHomogeneousToQuaternion
 - cbiMatlabDatatype2Nifti
 - cbiNiftiDatatype2Matlab
 - cbiQuaternionToHomogeneous
 - cbiReadNifti
 - cbiReadNiftiHeader
 - cbiSetNiftiQform
 - cbiSetNiftiSform
 - cbiSizeofNifti
 - cbiSwapNiftiDimensions
 - cbiWriteNifti
 - cbiWriteNiftiHeader
 - copyNiftiFile
 - copyNiftiTransforms
 - getPermutationMatrix
 - mlrXFormFromHeader
 - mrFixNiftiHdr
 - mrSetNiftiTransforms
 - mrUpdateNiftiHdr
 - setNiftiTransforms
 - xformSurfaceWorld2Array
 
mrUtilities/File/Varian
- fdf2nifti
 - fid2nifti
 - fid2niftihdr
 - fid2xform
 - fiddir
 - getfid
 - getfidk
 - readfdf
 - readpetable
 - readprocpar
 - readsdt
 - writesdt
 
mrUtilities/File/mlrImage
- mlrImageArgFilename
 - mlrImageGetAllFilenames
 - mlrImageGetAxisLabels
 - mlrImageGetNiftiHeader
 - mlrImageHeaderDisp
 - mlrImageHeaderEdit
 - mlrImageHeaderLoad
 - mlrImageHeaderSave
 - mlrImageIsHeader
 - mlrImageIsImage
 - mlrImageLoad
 - mlrImageNiftiHeader
 - mlrImageOrient
 - mlrImageParseArgs
 - mlrImageReadNifti
 - mlrImageReadNiftiHeader
 - mlrImageReslice
 - mlrImageSave
 - mlrImageWriteNifti
 - mlrImageWriteNiftiHeader
 - mlrImageXform
 - mlrVol
 
mrUtilities/File/neuropythy
mrUtilities/ImageProcessing
- addBorder
 - binomialFilter
 - blur
 - blurDn
 - circularShift
 - clip
 - color2RGB
 - computeDerivatives2
 - computeDerivatives3
 - conv2sep
 - convXYZsep
 - convXYsep
 - convZ
 - corrDn
 - estMotion2
 - estMotion3
 - estMotionInterp3
 - estMotionIter2
 - estMotionIter3
 - estMotionMulti2
 - estMotionMulti3
 - i4block_components
 - imageMosaic
 - mrImRotate
 - mrUpSample.m
 - mse
 - myCinterp3.m
 - named_filter
 - nanconvn
 - quatR2mat
 - quatrot
 - rconv2
 - reduce
 - rescale2rgb
 - robustMest
 - scale_im
 - select3d
 - selectCropRegion
 - upBlur
 - upConv
 - upSample
 - upSampleRep
 - warpAffine2
 - warpAffine3
 - warpAffineInterp3
 
mrUtilities/MatlabUtilities
- askuser
 - buttondlg
 - callbackEval
 - cdanat
 - cellArray
 - cellReshape
 - cellToCommaDelimited
 - cellcat
 - commaDelimitedToCell
 - copyFields
 - dispHeader
 - disppercent
 - evalargs
 - fieldIsNotDefined
 - first
 - fixBadChars
 - getArgs
 - getLastDir
 - getPathStrDialog
 - getPathStrDialog
 - getRelativePath
 - getSmoothColor
 - getext
 - getptsNoDoubleClick
 - grep
 - ieNotDefined
 - isCurrentPath
 - isGetArgs
 - iseven
 - isodd
 - last
 - loadMrDefaults
 - makeRotMatrix3D
 - matlabVersionNumber
 - mlrDispElapsedTime
 - mlrExplicitPath
 - mlrFullCrosshair
 - mlrGetMatlabVersion
 - mlrIsFile
 - mlrNumWorkers
 - mlrReplaceTilde
 - mlrSmartfig
 - mrCache
 - mrCloseDlg
 - mrDefaultsFilename
 - mrDisp
 - mrEditPrefs
 - mrErrorDlg
 - mrGetFigLoc
 - mrGetPref
 - mrMsgBox
 - mrParamsClose
 - mrParamsCopyFields
 - mrParamsDefault
 - mrParamsDialog
 - mrParamsDisp
 - mrParamsEnable
 - mrParamsGet
 - mrParamsParse
 - mrParamsRemoveField
 - mrParamsSet
 - mrSearchHelp
 - mrSetFigLoc
 - mrSetPref
 - mrStr2num
 - mrSub2ind
 - mrWaitBar
 - mrWarnDlg
 - mylegend
 - mynum2str
 - oneTimeWarning
 - putOnTopOfList
 - putPathStrDialog
 - randomColors
 - rot2euler
 - saveMrDefaults
 - setext
 - stripext
 - stripfilesep
 
mrUtilities/Plot
- correctMonitorPosition.m
 - dsErrorsurface
 - getArrayDimensions
 - getMonitorNumber.m
 - getMonitorPositions.m
 - getSubplotPosition
 - getcolor
 - getedgecolor
 - getsymbol
 - hline
 - makeEqualXaxis
 - makeEqualYaxis
 - plotConfidenceIntervals
 - vline
 - xaxis
 - yaxis
 
mrUtilities/make
mrUtilities/mrFlatMesh
- assignPerimeterPositions
 - assignToNearest.m
 - connectionBasedSmooth
 - correctBadNodes
 - dijk
 - dijkstra
 - find3DNeighbourDists
 - findBadPerimNodes
 - findConnectionMatrix
 - findEdgesInGroup
 - findFaceArea
 - findFacesInGroup
 - findGroupPerimeter
 - findLegalPerimeters2
 - findNPConnection
 - findUniqueFaceIndexList
 - floodFillFindPerim
 - makeMeshImage
 - mfmAreaErrorMap
 - mfmBuildSubMesh
 - orderMeshPerimeterPointsAll
 - removeHangingNodes
 - scaleConnectionMatrixToDist
 - shift
 - statusStringAdd
 
mrUtilities/surfUtils
| Version | Published | Release Notes | |
|---|---|---|---|
| 4.8 | 
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