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oro.nifti (version 0.7.2)

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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Version

Install

install.packages('oro.nifti')

Monthly Downloads

2,823

Version

0.7.2

License

BSD_3_clause + file LICENSE

Homepage

http://rig.oro.us.com

Maintainer

Brandon Whitcher

Last Published

December 31st, 2016

Functions in oro.nifti (0.7.2)

Extract Image Attribute bitpix

Facilitate the Creation and Modification of Audit Trails

Bitwise Conversion Subroutines

Constructor for Analyze

Operations for Objects in the ANALYZE and NIfTI classes

aux_file-methods

Extract Image Attribute aux_file

Convert ANALYZE Codes

Convert ANALYZE Codes

Set Minimum/Maximum Values for NIfTI data

compressed-methods

Extract Image Attribute compressed

Convert NIfTI Codes

Convert NIfTI Codes

cal_units-methods

Extract Image Attribute cal_units

cal_min-methods

Extract Image Attribute cal_min

cal_max-methods

Extract Image Attribute cal_max

data_type-methods

Extract Image Attribute data_type

datatype-methods

Extract Image Attribute datatype

Convert AFNI data codes

funused1-methods

Extract Image Attribute funused1

extender-methods

Extract Image Attribute extender

extents-methods

Extract Image Attribute extents

field_skip-methods

Extract Image Attribute field_skip

intent_code-methods

Extract Image Attribute intent_code

Convert oro.nifti nifti to RNifti niftiImage object

Extract Image Attribute dim_

Constructor for NIfTI

intent_name-methods

Extract Image Attribute intent_name

intent_p3-methods

Extract Image Attribute intent_p3

hkey_un0-methods

Extract Image Attribute hkey_un0

dim_info-methods

Extract Image Attribute dim_info

Hot Metal Color Table

descrip-methods

Extract Image Attribute descrip

db_name-methods

Extract Image Attribute db_name

generated-methods

Extract Image Attribute generated

intent_p1-methods

Extract Image Attribute intent_p1

Extract Image Attribute glmax

Convert RNifti niftiImage to oro.nifti nifti object

intent_p2-methods

Extract Image Attribute intent_p2

Extract Image Attribute omax

Extract Image Attribute orient

Extract Image Attribute origin

dim_un0-methods

Extract Image Attribute dim_un0

dropImageDimension

Drop Image Dimension

hist_un0-methods

Extract Image Attribute hist_un0

Extract Image Attribute glmin

Extract Image Attribute magic

niftiAuditTrail-class

Class "niftiAuditTrail"

qform_code-methods

Extract Image Attribute qform_code

niftiExtension-class

Class "niftiExtension"

qoffset_y-methods

Extract Image Attribute qoffset_y

qoffset_x-methods

Extract Image Attribute qoffset_x

quatern_b-methods

Extract Image Attribute quatern_b

qoffset_z-methods

Extract Image Attribute qoffset_z

patient_id-methods

Extract Image Attribute patient_id

quatern_c-methods

Extract Image Attribute quatern_c

sizeof_hdr-methods

Extract Image Attribute sizeof_hdr

sform_code-methods

Extract Image Attribute sform_code

toffset-methods

Extract Image Attribute toffset

Tim's Useful Color Table

Dimension Accessor Functions

performPermutation

Transform array with orthogonal permutation matrix

Extract Image Attribute pixdim

Remove File Extensions Around the NIfTI/ANALYZE Formats

Reorient Image using NIfTI header

verified-methods

Extract Image Attribute verified

scl_slope-methods

Extract Image Attribute scl_slope

session_error-methods

Extract Image Attribute session_error

scannum-methods

Extract Image Attribute scannum

Extract Image Attribute views

translateCoordinate

Translate Voxel Coordinates

scl_inter-methods

Extract Image Attribute scl_inter

unused1-methods

Extract Image Attribute unused1

Gets Voxel Resolution

xyzt_units-methods

Extract Image Attribute xyzt_units

slice_start-methods

Extract Image Attribute slice_start

quatern_d-methods

Extract Image Attribute quatern_d

vox_offset-methods

Extract Image Attribute vox_offset

quaternion2rotation

Convert Quaternion into a Rotation Matrix

slice_end-methods

Extract Image Attribute slice_end

funused2-methods

Extract Image Attribute funused2

vols_added-methods

Extract Image Attribute vols_added

integerTranslation

integerTranslation

img_data-methods

Extract Image Attribute .Data

funused3-methods

Extract Image Attribute funused3

niftiExtensionSection-class

Class "niftiExtensionSection"

nifti-operators

Operations for NIfTI Objects

Extract Image Attribute omin

start_field-methods

Extract Image Attribute start_field

Extract Image Attribute srow_z

regular-methods

Extract Image Attribute regular

exp_time-methods

Extract Image Attribute exp_time

exp_date-methods

Extract Image Attribute exp_date

Creates the onefile Specification for NIfTI

slice_code-methods

Extract Image Attribute slice_code

slice_duration-methods

Extract Image Attribute slice_duration

Extract Image Attribute smax

resetSlopeIntercept

Change Intercept to 0 and Slope to 1 in NIfTI Object

Extract Image Attribute smin

Extract Image Attribute srow_y

Extract Image Attribute srow_x

vox_units-methods

Extract Image Attribute vox_units

Gets Voxel Dimensions