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oro.nifti (version 0.11.4)

Rigorous - 'NIfTI' + 'ANALYZE' + 'AFNI' : Input / Output

Description

Functions for the input/output and visualization of medical imaging data that follow either the 'ANALYZE', 'NIfTI' or 'AFNI' formats. This package is part of the Rigorous Analytics bundle.

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Install

install.packages('oro.nifti')

Monthly Downloads

2,070

Version

0.11.4

License

BSD_3_clause + file LICENSE

Maintainer

Brandon Whitcher

Last Published

August 10th, 2022

Functions in oro.nifti (0.11.4)

Extract Image Attribute bitpix

Facilitate the Creation and Modification of Audit Trails

Operations for Objects in the ANALYZE and NIfTI classes

aux_file-methods

Extract Image Attribute aux_file

Constructor for Analyze

audit.trail-methods

Extract or Replace NIfTI Audit Trail

Convert AFNI data codes

cal_units-methods

Extract Image Attribute cal_units

cal_min-methods

Extract Image Attribute cal_min

dim_info-methods

Extract Image Attribute dim_info

intent_name-methods

Extract Image Attribute intent_name

dim_un0-methods

Extract Image Attribute dim_un0

exp_time-methods

Extract Image Attribute exp_time

extender-methods

Extract Image Attribute extender

intent_p1-methods

Extract Image Attribute intent_p1

Set Minimum/Maximum Values for NIfTI data

Convert ANALYZE Codes

Convert ANALYZE Codes

Convert NIfTI Codes

Convert NIfTI Codes

data_type-methods

Extract Image Attribute data_type

Extract Image Attribute glmax

performPermutation

Transform array with orthogonal permutation matrix

niftiExtensionSection-class

Class "niftiExtensionSection"

patient_id-methods

Extract Image Attribute patient_id

niftiImage-class

"niftiImage" class

generated-methods

Extract Image Attribute generated

hist_un0-methods

Extract Image Attribute hist_un0

funused3-methods

Extract Image Attribute funused3

Merge Two NIfTI or ANALYZE Volumes

datatype-methods

Extract Image Attribute datatype

Bitwise Conversion Subroutines

cal_max-methods

Extract Image Attribute cal_max

compressed-methods

Extract Image Attribute compressed

descrip-methods

Extract Image Attribute descrip

Force an Object to Belong to the ANALYZE or NIfTI Class

qoffset_z-methods

Extract Image Attribute qoffset_z

Methods for Function `image'

Extract Image Attribute glmin

extents-methods

Extract Image Attribute extents

db_name-methods

Extract Image Attribute db_name

Hot Metal Color Table

quatern_b-methods

Extract Image Attribute quatern_b

hkey_un0-methods

Extract Image Attribute hkey_un0

Convert RNifti niftiImage to oro.nifti nifti object

intent_p2-methods

Extract Image Attribute intent_p2

intent_p3-methods

Extract Image Attribute intent_p3

Extract Image Attribute magic

field_skip-methods

Extract Image Attribute field_skip

Gets Image Length in Each Dimension

img_data-methods

Extract Image Attribute .Data

Dimension Accessor Functions

Extract Image Attribute omax

scl_inter-methods

Extract Image Attribute scl_inter

overlay-methods

Methods for Function overlay

orthographic-methods

Methods for Function `orthographic' in Package `dcemriS4'

scl_slope-methods

Extract Image Attribute scl_slope

nifti_assign-methods

Methods for Function [<- in Package 'base'

dropImageDimension

Drop Image Dimension

Extract Image Attribute pixdim

Creates the onefile Specification for NIfTI

Extract Image Attribute omin

qform_code-methods

Extract Image Attribute qform_code

qoffset_x-methods

Extract Image Attribute qoffset_x

Remove File Extensions Around the NIfTI/ANALYZE Formats

regular-methods

Extract Image Attribute regular

nifti-operators

Operations for NIfTI Objects

qoffset_y-methods

Extract Image Attribute qoffset_y

exp_date-methods

Extract Image Attribute exp_date

Extract Image Attribute dim_

funused1-methods

Extract Image Attribute funused1

funused2-methods

Extract Image Attribute funused2

intent_code-methods

Extract Image Attribute intent_code

integerTranslation

integerTranslation

Extract Image Attribute srow_y

internalImage-class

"internalImage" class

Extract Image Attribute orient

niftiAuditTrail-class

Class "niftiAuditTrail"

quaternion2rotation

Convert Quaternion into a Rotation Matrix

slice_duration-methods

Extract Image Attribute slice_duration

slice_code-methods

Extract Image Attribute slice_code

niftiExtension-class

Class "niftiExtension"

Extract Image Attribute srow_z

unused1-methods

Extract Image Attribute unused1

verified-methods

Extract Image Attribute verified

writeNIfTI-methods

Extract Image Attribute origin

Constructor for NIfTI

translateCoordinate

Translate Voxel Coordinates

toffset-methods

Extract Image Attribute toffset

orientation-methods

Extract NIfTI 3D Image Orientation

slice_start-methods

Extract Image Attribute slice_start

scannum-methods

Extract Image Attribute scannum

Reorient Image using NIfTI header

Extract Image Attribute smax

Extract Image Attribute views

Convert oro.nifti nifti to RNifti niftiImage object

writeAFNI-methods

vols_added-methods

Extract Image Attribute vols_added

resetSlopeIntercept

Change Intercept to 0 and Slope to 1 in NIfTI Object

quatern_c-methods

Extract Image Attribute quatern_c

session_error-methods

Extract Image Attribute session_error

quatern_d-methods

Extract Image Attribute quatern_d

sform_code-methods

Extract Image Attribute sform_code

writeANALYZE-methods

Extract Image Attribute smin

xyzt_units-methods

Extract Image Attribute xyzt_units

sizeof_hdr-methods

Extract Image Attribute sizeof_hdr

slice_end-methods

Extract Image Attribute slice_end

start_field-methods

Extract Image Attribute start_field

Methods for Function `slice'

slice_overlay-methods

Methods for Function slice_overlay

Tim's Useful Color Table

Extract Image Attribute srow_x

vox_offset-methods

Extract Image Attribute vox_offset

vox_units-methods

Extract Image Attribute vox_units

Gets Voxel Resolution

Gets Voxel Dimensions