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

Share:

Base package for 'Neuroconductor', which includes many helper functions that interact with objects of class 'nifti', implemented by package 'oro.nifti', for reading/writing and also other manipulation functions.

Author
John Muschelli <muschellij2@gmail.com>
Date of publication
2016-09-27 08:41:48
Maintainer
John Muschelli <muschellij2@gmail.com>
License
GPL-2
Version
1.1.1.1

View on CRAN

Man pages

applyEmptyImageDimensions
Apply Subsetting from Empty Image Dimensions
breaker
Find Breaks for nifti Image Ploting
checkimg-methods
Force object to filename
check_mask
Check Mask is Binary
check_mask_fail
Check Mask is Binary, Fail otherwise
check_nifti-methods
Check if nifti image or read in a nifti image
checkniigz-methods
Force object to filename with .nii.gz extension
checknii-methods
Force object to filename with .nii extension
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
double_ortho
Double Orthographic Display
dropEmptyImageDimensions
Drop Empty Image Dimensions
file_imgext
Get Image file extension
finite_img-methods
Finite Image
getEmptyImageDimensions
Get Empty Image Dimensions
maskEmptyImageDimensions
Make Mask from Empty Image Dimensions
mask_img
Mask nifti 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_img
Create Quantile Image
readNIfTI2
readNIfTI with default non-reoirientation
remake_img
Remake Image from Vector
replace_dropped_dimensions
Remake Dropped Dimensions
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
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

Files in this package

neurobase
neurobase/tests
neurobase/tests/testthat.R
neurobase/tests/testthat
neurobase/tests/testthat/test-finite_img.R
neurobase/tests/testthat/test-file_imgext.R
neurobase/tests/testthat/test-datatyper.R
neurobase/tests/testthat/test-cog.R
neurobase/tests/testthat/test-breaker.R
neurobase/tests/testthat/test-check_mask.R
neurobase/tests/testthat/test-checknii.R
neurobase/tests/testthat/test-drop_apply_dims.R
neurobase/tests/testthat/test-check_outfile.R
neurobase/tests/testthat/test-checkimg.R
neurobase/NAMESPACE
neurobase/R
neurobase/R/rescale_img.R
neurobase/R/writenii.R
neurobase/R/replace_dropped_dimensions.R
neurobase/R/tempimg.R
neurobase/R/zlimmer.R
neurobase/R/remake_img.R
neurobase/R/check_outfile.R
neurobase/R/check_nifti.R
neurobase/R/quantile_img.R
neurobase/R/double_ortho.R
neurobase/R/nii.stub.R
neurobase/R/readNIfTI2.R
neurobase/R/niftiarr.R
neurobase/R/zero_pad.R
neurobase/R/checkniigz.R
neurobase/R/window_img.R
neurobase/R/dropEmptyImageDimensions.R
neurobase/R/mask_img.R
neurobase/R/file_imgext.R
neurobase/R/maskEmptyImageDimensions.R
neurobase/R/check_mask.R
neurobase/R/ortho_diff.R
neurobase/R/import_methods.R
neurobase/R/applyEmptyImageDimensions.R
neurobase/R/checknii.R
neurobase/R/breaker.R
neurobase/R/checkimg.R
neurobase/R/overlay2.R
neurobase/R/cog.R
neurobase/R/copyNIfTIHeader.R
neurobase/R/robust_window.R
neurobase/R/ortho2.R
neurobase/R/getEmptyImageDimensions.R
neurobase/R/same_dims.R
neurobase/R/parse_img_ext.R
neurobase/R/finite_img.R
neurobase/MD5
neurobase/DESCRIPTION
neurobase/man
neurobase/man/checkniigz-methods.Rd
neurobase/man/copyNIfTIHeader.Rd
neurobase/man/datatype.Rd
neurobase/man/writeNIfTI2.Rd
neurobase/man/check_mask_fail.Rd
neurobase/man/mask_img.Rd
neurobase/man/file_imgext.Rd
neurobase/man/ortho2.Rd
neurobase/man/window_img.Rd
neurobase/man/zscore_img.Rd
neurobase/man/tempimg.Rd
neurobase/man/niftiarr.Rd
neurobase/man/ortho_diff.Rd
neurobase/man/remake_img.Rd
neurobase/man/cog.Rd
neurobase/man/zlimmer.Rd
neurobase/man/readNIfTI2.Rd
neurobase/man/quantile_img.Rd
neurobase/man/check_mask.Rd
neurobase/man/parse_img_ext.Rd
neurobase/man/zero_pad.Rd
neurobase/man/rescale_img.Rd
neurobase/man/double_ortho.Rd
neurobase/man/newnii.Rd
neurobase/man/maskEmptyImageDimensions.Rd
neurobase/man/dropEmptyImageDimensions.Rd
neurobase/man/breaker.Rd
neurobase/man/xyz.Rd
neurobase/man/multi_overlay.Rd
neurobase/man/applyEmptyImageDimensions.Rd
neurobase/man/finite_img-methods.Rd
neurobase/man/colorbar.Rd
neurobase/man/check_nifti-methods.Rd
neurobase/man/getEmptyImageDimensions.Rd
neurobase/man/robust_window.Rd
neurobase/man/check_outfile.Rd
neurobase/man/replace_dropped_dimensions.Rd
neurobase/man/nii.stub.Rd
neurobase/man/checkimg-methods.Rd
neurobase/man/checknii-methods.Rd
neurobase/man/same_dims.Rd