Man pages for neuroconductor/extrantsr
Extra Functions to Build on the 'ANTsR' Package

accessor-methodsExtract Image Attributes 'origin' from 'antsImage' or 'nifti'...
ants2oroConvert Between antsImage and nifti objects
ants_apply_transforms-methodsApply ANTs transforms to nifti images
ants_bwlabelANTs BWLabel Clusters of Certain Size
antsCopyCopy Information of One Image to Another
ants.extractExtract values from antsImage from mask
ants.overlayPlot Lightbox for antsImage
ants_regwriteRegistration to a Template
applyEmptyImageDimensions-methodsApply Subsetting from Empty Image Dimensions
apply_malf_regsApply MALF Registrations
apply_multi_reg-methodsCheck if antsImage or read in
bias_correctN3 or N4 Correct
bias_ssBias Field Correct then Skull Strip
brain_extractWrapper for ANTs brain extraction
c3dConvert NeuroImage Types
check_ants-methodsCheck if antsImage or read in
checkimg-methodsForce object to filename
check_nifti-methodsCheck if nifti image or read in a nifti image
compose_transform_to_fileCompose Transforms from ANTsR to a composite file
corr_imgNeighborhood Correlation Image
cort_thicknessCompute cortical thickness using Kelly Kapowski (ANTsR)
create_momentCreate Neighborhood Momemts of an Image
diff_selfFlipped Difference Image
double_remove_neckRemove Neck Twice from a Scan
emptyImageDimensionsMask-methodsMake Mask from Empty Image Dimensions
fill_2d_zImage Mask Filler over each slice in Z-direction
fillerImage Mask Filler
fslbet_robustRobust Skull Stripping with COG estimation and Bias...
group_xyz2Center of Gravity for Multiple Components/Areas
image_similarityCompute Image Similarity Metrics
img_cov_matrixNeighborhood Covariance Matrix
img_density_entropyImage Entropy using density
img_hist_entropyImage Entropy using histograms
img_splitSplit an Image into Multiple Sub-Images
inpaintInpainting of images
jacobian_imageImage of the Determinant of the Jacobian
label_maskLabel Connected Components
largest_componentGet Largest Component
local_quantile_imgQuantile Transform Voxel based on Neighborhood Distribution
makepngNon-exported function to make png
malfMulti-Atlas Label Fusion
malf_registrationMulti-Atlas Label Fusion Registration
maskEmptyImageDimensions-methodsApply Masking from Empty Image Dimensions
multi_regMulti-Registration
multi_reregTwo-Stage Multi-Registration of images
mutual_informationCalculates Mutual Information on nifti objects
my.tabQuick Tabulation for logical vectors
n4_4dFour-Dimensional Bias-Field Correction
neighborhoodGet Neighborhood of Voxels from an Image
neighborhood_indexGet Neighborhood Matrix of Indices from an Image
oasisOASIS Processing Pipeline
oMaskGet Mask from nifti object
oMathPerform iMath on nifti objects
oro2antsConvert Between nifti and antsImage
ortho2-methodsOrthographic Display, added options
otroposRun Atropos for nifti objects
otropos2Run Atropos for nifti objects
perona_malikPerona-Malik Anisotropic Filter
pixdim-methodsExtract Image pixdim attribute
preprocess_mri_acrossPreprocess MRI acros visits
preprocess_mri_withinWithin Visit Registration
process_filenamesProcess filenames to ensure nifti and consistency
read_transformlistRead Transform List from ANTsR
reapply_malfReapply MALF Operation
reg_flipFlip Image with Registration
reg_flip_imgFlip Image with Registration
registrationRegistration Wrapper function
reg_whitestripeWhiteStripe Normalization
reg_zscoreZ-score Normalization
remove_neckRemove Neck from Image
reorder_neigh_indicesReorder Voxel Neighborhood
reproducible_antsSet reproducible seeds and threads for ANTsR execution
resample_image-methodsResample an image
resample_to_target-methodsResample an Image to a Target Image
robust_brain_maskRobust Brain Mask from Template
scaled_neighborhoodGet Scaled Neighborhood of Voxels from an Image
simCalculate Overlap Metrics
smooth_imageGaussian smooth image using ANTsR
smri_preprocStandard MRI Preprocessing
ss_biasSkull Strip then Bias Field Correct
stat_imgCreate Statistics Image
subset_4d-methodsSubset a 4D image
tempantsCreate temporary nii.gz file from antsImage
transformlist_from_outprefixGet list of transforms that would likely be made with a...
within_visit_registrationWithin Visit Registration
write_transformlistRead Transform List from ANTsR
zscore_templateCreate Z-score-to-Template Image
neuroconductor/extrantsr documentation built on Dec. 13, 2018, 7:03 a.m.