'Neuroconductor' Base Package with Helper Functions for 'nifti' Objects


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Documentation for package ‘neurobase’ version 1.13.2

Help Pages

applyEmptyImageDimensions Apply Subsetting from Empty Image Dimensions
apply_empty_dim Apply Subsetting from Empty Image Dimensions
boxplot.anlz Boxplot of Values in an Image
boxplot.nifti Boxplot of Values in an Image
breaker Find Breaks for nifti Image Ploting
checkimg Force object to filename
checkimg-method Force object to filename
checkimg-methods Force object to filename
checknii Force object to filename with .nii extension
checknii-method Force object to filename with .nii extension
checknii-methods Force object to filename with .nii extension
checkniigz Force object to filename with .nii.gz extension
checkniigz-method Force object to filename with .nii.gz extension
checkniigz-methods Force object to filename with .nii.gz extension
check_mask Check Mask is Binary
check_mask_fail Check Mask is Binary, Fail otherwise
check_nifti Check if nifti image or read in a nifti image
check_nifti-method Check if nifti image or read in a nifti image
check_nifti-methods Check if nifti image or read in a nifti image
check_outfile Check output filename
cog Image Center of Gravity
colorbar Add a colorbar to an ortho2 object
copyNIfTIHeader Copy NIfTI Header to an array
datatype Change Data type for img
datatyper Change Data type for img
density.anlz Density of Values in an Image
density.nifti Density of Values in an Image
double_ortho Double Orthographic Display
dropEmptyImageDimensions Drop Empty Image Dimensions
drop_empty_dim Drop Empty Image Dimensions
ensure_nii Force object to filename with .nii extension
ensure_nii_gz Force object to filename with .nii.gz extension
fast_readnii Reading NIfTI images through RNifti
file_imgext Get Image file extension
finite_img Finite Image
finite_img-method Finite Image
finite_img-methods Finite Image
getEmptyImageDimensions Get Empty Image Dimensions
get_empty_dim Get Empty Image Dimensions
hist.anlz Histogram of Values in an Image
hist.nifti Histogram of Values in an Image
images2matrix Transform set of images to matrix
img_indices Retrieve Image Indices
maskEmptyImageDimensions Make Mask from Empty Image Dimensions
mask_empty_dim Make Mask from Empty Image Dimensions
mask_img Mask nifti Image
mask_vals Extract or Replace Values Inside a Mask
mask_vals-methods, Extract or Replace Values Inside a Mask
mask_vals<- Extract or Replace Values Inside a Mask
mask_vals<--method Extract or Replace Values Inside a Mask
mean.anlz Mean of Values in an Image
mean.nifti Mean of Values in an Image
multi_overlay Create Multi-Image Plot with Overlays
newnii Resets image parameters for a copied nifti object
niftiarr Make new nifti from array
nii.stub Grab nii file stubname
ortho2 Orthographic Display, added options
ortho_diff Plot differences for Prediction and Gold Standard
parse_img_ext Parse Image Extensions
quantile.anlz Sample Quantiles
quantile.nifti Sample Quantiles
quantile_img Create Quantile Image
randomize_mask Randomize Image based on Mask
readNIfTI2 readNIfTI with default non-reorientation
readnii readNIfTI with default non-reorientation
remake_img Remake Image from Vector
remap_filename Build Filename (usually for images)
replace_dropped_dimensions Remake Dropped Dimensions
replace_outside_surface Replace Values Outside Surface of image
rescale_img Image Rescaler
robust_window Window image based on quantiles of Image
same_dims Check if Objects have Same Dimensions
tempimg Create temporary nii.gz file
window_img nifti image windower
writeNIfTI2 writeNIfTI with default non-reoirientation
writenii writeNIfTI with default non-reoirientation
xyz Image Center of Gravity Wrapper
zero_pad Zero pads an image
zlimmer Find Image z-limits
zscore_img Get Z-score over a margin of an img