A B C D E F G H I J K L M N O P Q R S T V W misc
aal | aal |
abpBrainExtraction | An ants-based brain extraction script. |
abpN4 | MR image bias correction based on the N4 algorithm. |
affineInitializer | a multi-start optimizer for affine registration |
alffmap | alffmap |
antsAverageImages | Computes average of image list |
antsBOLDNetworkAnalysis | a basic framework for network analysis that produces graph metrics |
antsMotionCalculation | antsMotionCalculation |
antsMotionCorr | Motion Correction |
antsrimpute | antsrimpute |
antsrMotionCalculation | antsrMotionCalculation |
antsrSurf | Render a function onto a surface. |
antsrVersions | antsrVersions |
antsrVol | Render an image volume with or without overlay. |
antsSpatialICAfMRI | Perform spatial ICA on fMRI bold data. |
aslAveraging | Average ASL tag-control pairs to estimate perfusion |
aslCensoring | Censor bad volumes from ASL data. |
aslDenoiseR | WIP: data-driven denoising for ASL MRI |
aslPerfusion | ASL-based Perfusion from PASL, CASL or pCASL. |
basicInPaint | Inpaints missing imaging data from boundary data |
bayesianCBF | Uses probabilistic segmentation to constrain pcasl-based cbf computation. |
bayesianlm | Simple bayesian regression function. |
blockStimulus | Block stimulus model for FMRI Data |
bloodPerfusionSVD | Calculate blood perfusion using deconvolution. |
bold_correlation_matrix | bold_correlation_matrix |
clusterTimeSeries | Split time series image into k distinct images |
combineNuisancePredictors | Combine and reduce dimensionality of nuisance predictors. |
compcor | Compcors the input matrix using SVD and returns the result. |
composeTransformsToField | Compose arbitrary transform list into a deformation field. |
computeDVARS | computeDVARS |
computeDVARSspatialMap | computeDVARSspatialMap |
convolveImage | convolve one image with another |
corw | produces a correlation matrix via weighted correlation. |
createJacobianDeterminantImage | createJacobianDeterminantImage |
createWarpedGrid | Create a warped grid for visualization. |
crossvalidatedR2 | Cross-Validated R^2 value |
cvEigenanatomy | Cross-validation method for eigenanatomy decompositions. |
deconvolutionSVD | Regularize SVD (deconvolution) solution of cerebral blood flow. |
DesikanKillianyTourville | DesikanKillianyTourville |
eanatDef | Eigenanatomy with deflation |
eanatSelect | Selection of n eigenvectors and sparsity for eigenanatomy |
eigSeg | Segmentation for eigenanatomy. |
estSmooth | Estimate image smoothness |
euler | Euler Character |
exemplarInpainting | Uses example images to inpaint or approximate an existing image. |
fastMarchingExtension | Fast Marching Extension filter will extend an intensity or label image from a known region into the unknown region along a geodesic path |
filterfMRIforNetworkAnalysis | Basic pre-processing for BOLD or ASL-based network analysis. |
fMRINormalization | Multi-run normalization, filtering and nuisance estimation for fMRI. |
frequencyFilterfMRI | Band pass filtering for BOLD image. |
fsl2antsrTransform | fsl2antsrTransform |
geoSeg | brain segmentation based on geometric priors |
getASLNoisePredictors | Get nuisance predictors from ASL images |
getAverageOfTimeSeries | getAverageOfTimeSeries |
getCenterOfMass | center of mass |
getCentroids | Convert an image to the geometric centroids of its signal |
getfMRInuisanceVariables | Extract generic fMRI nuisance variables for ASL or BOLD |
getMultiResFeatureMatrix | build multiple resolution predictor matrix from feature images |
getMultivariateTemplateCoordinates | Label multivariate components by an anatomical coordinate system. |
getTemplateCoordinates | Define an anatomical coordinate system in a new image based on a template |
hemodynamicRF | Linear Model for FMRI Data |
icawhiten | Simple icawhitening function. |
image2ClusterImages | Converts an image to several independent images. |
imageDomainToSpatialMatrix | Image domain to spatial position |
imageListToMatrix | Read Images into a Matrix |
imagesToMatrix | Read Images into a Matrix |
initializeEigenanatomy | Convert a matrix to a form that can be used to initialize sparse cca and pca. |
interleaveMatrixWithItself | Simple interleaveMatrixWithItself function. |
invariantImageSimilarity | similarity metrics between two images as a function of geometry |
joinEigenanatomy | Simple joinEigenanatomy function. |
jointLabelFusion | joint label and intensity fusion |
jointSmoothMatrixReconstruction | joint smooth matrix prediction |
kellyKapowski | Compute cortical thickness using the DiReCT algorithm. |
knnSmoothImage | k-nearest neighbors constrained image smoothing |
knnSmoothingMatrix | k-nearest neighbors constrained smoothing |
labelGeometryMeasures | labelGeometryMeasures |
labelImageCentroids | labelImageCentroids |
labels2matrix | Convert label image to a matrix |
load.ANTsR | save.ANTsR |
lowrankRowMatrix | Produces a low rank version of the input matrix |
make3ViewPNG | Rotate an existing 3d window into different views. |
makeGraph | Simple function to create and measure a graph from a square input matrix. |
makePointsImage | Create label image from physical space points |
makePowersPointsImage | Label image from Powers points |
maskImage | Mask input image by mask image. |
matrix2timeseries | Simple matrix2timeseries function. |
matrixToImages | Convert rows of a matrix to images |
mergeListToNDImage | mergeListToNDImage |
mni2tal | Brett's mni2tal |
mrvnrfs | multi-res voxelwise neighborhood random forest segmentation learning |
mrvnrfs.predict | multi-res voxelwise neighborhood random forest segmentation |
multichannelPCA | Shape analysis of multichannel images based on PCA |
multichannelToVector | Convert multichannel 'antsImage' to a vector. |
multiLabelMorphology | Morphology on multi label images. |
multiResRandomForestRegression | multiple resolution neighborhood random forest regression |
multiscaleSVD | Multi-scale svd |
networkEiganat | Convenience wrapper for eigenanatomy decomposition. |
orthogonalizeAndQSparsify | sparsify a matrix |
pairwiseImageDistanceMatrix | Simple pairwiseImageDistanceMatrix function for images |
partialVolumeCorrection | Perform partial volume correction for ASL images. |
perfusionregression | Perfusion Regression |
petSUVR | Compute SUVR from PET time series images |
plotBasicNetwork | Simple plotBasicNetwork function. |
plotPrettyGraph | Simple plotPrettyGraph function saves to png. |
powers_areal_mni_itk | powers_areal_mni_itk |
preprocessfMRI | Preprocess BOLD fMRI image data. |
preprocessRestingBOLD | Preprocess resting BOLD fMRI image data. |
priorBasedSegmentation | spatial prior-based image segmentation. |
quantifyCBF | quantifyCBF |
quantifySNPs | Simple quantifySNPs function. |
randcca | randomized cca function. |
randsvd | randomized svd function. |
randwhiten | randomized whitening function. |
rapidlyInspectImageData | Simple rapidlyInspectImageData function. |
readNormalizedPopulationData | Read normalized population from h5 file |
reflectImage | reflectImage |
regressionNetworkViz | Visualize a regression result by a d3 network visualization. |
regressProjections | Regression on image set projection |
reho | REHO |
renderImageLabels | 3D surface-based rendering of image segmentation labels |
renderSurfaceFunction | 3D surface-based rendering of volume images. |
renormalizeProbabilityImages | Normalize (modified) probability images |
reorientImage | reorient image by its principal axis |
resels | Estimates image resels |
rfSegmentation | A rfSegmentation function. |
rfSegmentationPredict | A rfSegmentationPredict function. |
rftPval | RFT p-values |
rftResults | RFT Statistical Results |
robustMatrixTransform | Simple robustMatrixTransform function. |
rsfDenoise | WIP: data-driven denoising for resting state fMRI |
save.ANTsR | save.ANTsR |
segmentationRefinement.predict | Segmentation refinement using corrective learning (prediction) |
segmentationRefinement.train | Segmentation refinement using corrective learning (training) |
segmentShapeFromImage | convolution-based shape identification |
skeletonize | Skeletonize a binary segmentation. |
smoothAppGradCCA | cca via sparse smooth matrix prediction |
smoothMatrixPrediction | smooth matrix prediction |
smoothMultiRegression | Reconstruct a n by k vector given n by p matrix of predictors. |
smoothRegression | smooth matrix-based regression |
sparseDecom | Convenience wrapper for eigenanatomy decomposition. |
sparseDecom2 | Convenience wrapper for 2-view eigenanatomy decomposition. |
sparseDecom2boot | Convenience wrapper for 2-view eigenanatomy decomposition w/bootstrap initialization. |
sparseDecomboot | Convenience wrapper for eigenanatomy decomposition. |
sparseDistanceMatrix | Create sparse distance, covariance or correlation matrix |
sparseDistanceMatrixXY | Create sparse distance, covariance or correlation matrix from x, y |
sparseRegression | Sparse regression on input images. |
spatialbayesianlm | spatially constrained bayesian regression function. |
splitData | Split data for testing and training |
splitMask | split a mask into n labeled sub-masks |
splitNDImageToList | splitNDImageToList |
statFieldThresh | Produces a threshold value based on cluster or voxel level statistics |
subgradientL1Regression | Simple subgradientL1Regression function. |
subjectDataToGroupDataFrame | convert subject matrix data to a row in a dataframe. |
taskFMRI | Simple taskFMRI function. |
temporalwhiten | Simple autocorrelation-based temporal whitening function. |
testEanat | Test eigenanatomy in order |
timeseries2matrix | Time-series image to matrix |
timeseriesN3 | Run N3 on slices of timeseries. |
timeserieswindow2matrix | Time-series image to matrix of time windows around user-specified events |
tracts | tracts |
trapz | Calculate the area under a sampled curve (or set of curves). |
vectorToMultichannel | Convert vector to multichannel 'antsImage'. |
vwnrfs | voxelwise neighborhood random forest segmentation and prediction |
vwnrfs.predict | voxelwise neighborhood random forest prediction |
weingartenImageCurvature | image curvature for 2D or 3D |
whiten | Simple whitening function. |
writeNormalizedPopulationData | Save normalized population data to a h5 file |
.motion_correction | Simple motion_correction function. |