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

## Documentation for package ‘oro.nifti’ version 0.9.1

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Code demos. Use demo() to run them.

## Help Pages

A B C D E F G H I M N O P Q R S T U V W X Z misc

## -- A --

afni-class | Class "afni"
anlz | Constructor for Analyze
anlz-class | Class "anlz"
anlz-nifti-ops | Operations for Objects in the ANALYZE and NIfTI classes
as-method | Force an Object to Belong to the ANALYZE or NIfTI Class
as.anlz | as.anlz
as.nifti | as.nifti
as<--method | Force an Object to Belong to the ANALYZE or NIfTI Class
Audit Trails | Facilitate the Creation and Modification of Audit Trails
audit.trail | Extract or Replace NIfTI Audit Trail
audit.trail-method | Extract or Replace NIfTI Audit Trail
audit.trail-methods | Extract or Replace NIfTI Audit Trail
audit.trail<- | Extract or Replace NIfTI Audit Trail
audit.trail<--method | Extract or Replace NIfTI Audit Trail
aux.file | Extract Image Attribute 'aux_file'
aux.file-method | Extract Image Attribute 'aux_file'
aux.file<- | Extract Image Attribute 'aux_file'
aux.file<--method | Extract Image Attribute 'aux_file'
aux_file | Extract Image Attribute 'aux_file'
aux_file-method | Extract Image Attribute 'aux_file'
aux_file-methods | Extract Image Attribute 'aux_file'
aux_file-methods, | Extract Image Attribute 'aux_file'
aux_file<- | Extract Image Attribute 'aux_file'
aux_file<--method | Extract Image Attribute 'aux_file'

## -- B --

bitpix | Extract Image Attribute 'bitpix'
bitpix-method | Extract Image Attribute 'bitpix'
bitpix-methods | Extract Image Attribute 'bitpix'
bitpix-methods, | Extract Image Attribute 'bitpix'
bitpix<- | Extract Image Attribute 'bitpix'
bitpix<--method | Extract Image Attribute 'bitpix'
blend | Merge Two NIfTI or ANALYZE Volumes
blend,anlz,anlz-methods | Merge Two NIfTI or ANALYZE Volumes
blend,anlz,nifti-methods | Merge Two NIfTI or ANALYZE Volumes
blend,nifti,anlz-methods | Merge Two NIfTI or ANALYZE Volumes
blend,nifti,nifti-methods | Merge Two NIfTI or ANALYZE Volumes
blend-method | Merge Two NIfTI or ANALYZE Volumes
blendVolumes | Merge Two NIfTI or ANALYZE Volumes

## -- C --

cal.max | Extract Image Attribute 'cal_max'
cal.max-method | Extract Image Attribute 'cal_max'
cal.max<- | Extract Image Attribute 'cal_max'
cal.max<--method | Extract Image Attribute 'cal_max'
cal.min | Extract Image Attribute 'cal_min'
cal.min-method | Extract Image Attribute 'cal_min'
cal.min<- | Extract Image Attribute 'cal_min'
cal.min<--method | Extract Image Attribute 'cal_min'
cal.units | Extract Image Attribute 'cal_units'
cal.units-method | Extract Image Attribute 'cal_units'
cal.units<- | Extract Image Attribute 'cal_units'
cal.units<--method | Extract Image Attribute 'cal_units'
calibrateImage | Set Minimum/Maximum Values for NIfTI data
cal_img | Set Minimum/Maximum Values for NIfTI data
cal_max | Extract Image Attribute 'cal_max'
cal_max-method | Extract Image Attribute 'cal_max'
cal_max-methods | Extract Image Attribute 'cal_max'
cal_max-methods, | Extract Image Attribute 'cal_max'
cal_max<- | Extract Image Attribute 'cal_max'
cal_max<--method | Extract Image Attribute 'cal_max'
cal_min | Extract Image Attribute 'cal_min'
cal_min-method | Extract Image Attribute 'cal_min'
cal_min-methods | Extract Image Attribute 'cal_min'
cal_min-methods, | Extract Image Attribute 'cal_min'
cal_min<- | Extract Image Attribute 'cal_min'
cal_min<--method | Extract Image Attribute 'cal_min'
cal_units | Extract Image Attribute 'cal_units'
cal_units-method | Extract Image Attribute 'cal_units'
cal_units-methods | Extract Image Attribute 'cal_units'
cal_units-methods, | Extract Image Attribute 'cal_units'
cal_units<- | Extract Image Attribute 'cal_units'
cal_units<--method | Extract Image Attribute 'cal_units'
coerce-method | Force an Object to Belong to the ANALYZE or NIfTI Class
coerce-methods | Force an Object to Belong to the ANALYZE or NIfTI Class
coerce<--method | Force an Object to Belong to the ANALYZE or NIfTI Class
compressed | Extract Image Attribute 'compressed'
compressed-method | Extract Image Attribute 'compressed'
compressed-methods | Extract Image Attribute 'compressed'
compressed-methods, | Extract Image Attribute 'compressed'
compressed<- | Extract Image Attribute 'compressed'
compressed<--method | Extract Image Attribute 'compressed'
Convert ANALYZE Codes | Convert ANALYZE Codes
Convert NIfTI Codes | Convert NIfTI Codes
convert.bitpix | Convert NIfTI Codes
convert.bitpix.anlz | Convert ANALYZE Codes
convert.datatype | Convert NIfTI Codes
convert.datatype.anlz | Convert ANALYZE Codes
convert.form | Convert NIfTI Codes
convert.intent | Convert NIfTI Codes
convert.orient.anlz | Convert ANALYZE Codes
convert.scene | Convert AFNI data codes
convert.slice | Convert NIfTI Codes
convert.units | Convert NIfTI Codes

## -- D --

data.type | Extract Image Attribute 'data_type'
data.type-method | Extract Image Attribute 'data_type'
data.type<- | Extract Image Attribute 'data_type'
data.type<--method | Extract Image Attribute 'data_type'
datatype | Extract Image Attribute 'datatype'
datatype-method | Extract Image Attribute 'datatype'
datatype-methods | Extract Image Attribute 'datatype'
datatype-methods, | Extract Image Attribute 'datatype'
datatype<- | Extract Image Attribute 'datatype'
datatype<--method | Extract Image Attribute 'datatype'
data_type | Extract Image Attribute 'data_type'
data_type-method | Extract Image Attribute 'data_type'
data_type-methods | Extract Image Attribute 'data_type'
data_type-methods, | Extract Image Attribute 'data_type'
data_type<- | Extract Image Attribute 'data_type'
data_type<--method | Extract Image Attribute 'data_type'
db.name | Extract Image Attribute 'db_name'
db.name-method | Extract Image Attribute 'db_name'
db.name<- | Extract Image Attribute 'db_name'
db.name<--method | Extract Image Attribute 'db_name'
db_name | Extract Image Attribute 'db_name'
db_name-method | Extract Image Attribute 'db_name'
db_name-methods | Extract Image Attribute 'db_name'
db_name-methods, | Extract Image Attribute 'db_name'
db_name<- | Extract Image Attribute 'db_name'
db_name<--method | Extract Image Attribute 'db_name'
descrip | Extract Image Attribute 'descrip'
descrip-method | Extract Image Attribute 'descrip'
descrip-methods | Extract Image Attribute 'descrip'
descrip-methods, | Extract Image Attribute 'descrip'
descrip<- | Extract Image Attribute 'descrip'
descrip<--method | Extract Image Attribute 'descrip'
dim2freq | Bitwise Conversion Subroutines
dim2phase | Bitwise Conversion Subroutines
dim2slice | Bitwise Conversion Subroutines
dim_ | Extract Image Attribute 'dim_'
dim_-method | Extract Image Attribute 'dim_'
dim_-methods | Extract Image Attribute 'dim_'
dim_-methods, | Extract Image Attribute 'dim_'
dim_<- | Extract Image Attribute 'dim_'
dim_<--method | Extract Image Attribute 'dim_'
dim_info | Extract Image Attribute 'dim_info'
dim_info-method | Extract Image Attribute 'dim_info'
dim_info-methods | Extract Image Attribute 'dim_info'
dim_info-methods, | Extract Image Attribute 'dim_info'
dim_info<- | Extract Image Attribute 'dim_info'
dim_info<--method | Extract Image Attribute 'dim_info'
dim_un0 | Extract Image Attribute 'dim_un0'
dim_un0-method | Extract Image Attribute 'dim_un0'
dim_un0-methods | Extract Image Attribute 'dim_un0'
dim_un0-methods, | Extract Image Attribute 'dim_un0'
dim_un0<- | Extract Image Attribute 'dim_un0'
dim_un0<--method | Extract Image Attribute 'dim_un0'
dropImageDimension | Drop Image Dimension
drop_img_dim | Drop Image Dimension

## -- E --

enableAuditTrail | Facilitate the Creation and Modification of Audit Trails
exp_date | Extract Image Attribute 'exp_date'
exp_date-method | Extract Image Attribute 'exp_date'
exp_date-methods | Extract Image Attribute 'exp_date'
exp_date-methods, | Extract Image Attribute 'exp_date'
exp_date<- | Extract Image Attribute 'exp_date'
exp_date<--method | Extract Image Attribute 'exp_date'
exp_time | Extract Image Attribute 'exp_time'
exp_time-method | Extract Image Attribute 'exp_time'
exp_time-methods | Extract Image Attribute 'exp_time'
exp_time-methods, | Extract Image Attribute 'exp_time'
exp_time<- | Extract Image Attribute 'exp_time'
exp_time<--method | Extract Image Attribute 'exp_time'
extender | Extract Image Attribute 'extender'
extender-method | Extract Image Attribute 'extender'
extender-methods | Extract Image Attribute 'extender'
extender-methods, | Extract Image Attribute 'extender'
extender<- | Extract Image Attribute 'extender'
extender<--method | Extract Image Attribute 'extender'
extents | Extract Image Attribute 'extents'
extents-method | Extract Image Attribute 'extents'
extents-methods | Extract Image Attribute 'extents'
extents-methods, | Extract Image Attribute 'extents'
extents<- | Extract Image Attribute 'extents'
extents<--method | Extract Image Attribute 'extents'

## -- F --

field.skip | Extract Image Attribute 'field_skip'
field.skip-method | Extract Image Attribute 'field_skip'
field.skip<- | Extract Image Attribute 'field_skip'
field.skip<--method | Extract Image Attribute 'field_skip'
field_skip | Extract Image Attribute 'field_skip'
field_skip-method | Extract Image Attribute 'field_skip'
field_skip-methods | Extract Image Attribute 'field_skip'
field_skip-methods, | Extract Image Attribute 'field_skip'
field_skip<- | Extract Image Attribute 'field_skip'
field_skip<--method | Extract Image Attribute 'field_skip'
funused1 | Extract Image Attribute 'funused1'
funused1-method | Extract Image Attribute 'funused1'
funused1-methods | Extract Image Attribute 'funused1'
funused1-methods, | Extract Image Attribute 'funused1'
funused1<- | Extract Image Attribute 'funused1'
funused1<--method | Extract Image Attribute 'funused1'
funused2 | Extract Image Attribute 'funused2'
funused2-method | Extract Image Attribute 'funused2'
funused2-methods | Extract Image Attribute 'funused2'
funused2-methods, | Extract Image Attribute 'funused2'
funused2<- | Extract Image Attribute 'funused2'
funused2<--method | Extract Image Attribute 'funused2'
funused3 | Extract Image Attribute 'funused3'
funused3-method | Extract Image Attribute 'funused3'
funused3-methods | Extract Image Attribute 'funused3'
funused3-methods, | Extract Image Attribute 'funused3'
funused3<- | Extract Image Attribute 'funused3'
funused3<--method | Extract Image Attribute 'funused3'

## -- G --

generated | Extract Image Attribute 'generated'
generated-method | Extract Image Attribute 'generated'
generated-methods | Extract Image Attribute 'generated'
generated-methods, | Extract Image Attribute 'generated'
generated<- | Extract Image Attribute 'generated'
generated<--method | Extract Image Attribute 'generated'
getLastCallWithName | Facilitate the Creation and Modification of Audit Trails
glmax | Extract Image Attribute 'glmax'
glmax-method | Extract Image Attribute 'glmax'
glmax-methods | Extract Image Attribute 'glmax'
glmax-methods, | Extract Image Attribute 'glmax'
glmax<- | Extract Image Attribute 'glmax'
glmax<--method | Extract Image Attribute 'glmax'
glmin | Extract Image Attribute 'glmin'
glmin-method | Extract Image Attribute 'glmin'
glmin-methods | Extract Image Attribute 'glmin'
glmin-methods, | Extract Image Attribute 'glmin'
glmin<- | Extract Image Attribute 'glmin'
glmin<--method | Extract Image Attribute 'glmin'

## -- H --

hist_un0 | Extract Image Attribute 'hist_un0'
hist_un0-method | Extract Image Attribute 'hist_un0'
hist_un0-methods | Extract Image Attribute 'hist_un0'
hist_un0-methods, | Extract Image Attribute 'hist_un0'
hist_un0<- | Extract Image Attribute 'hist_un0'
hist_un0<--method | Extract Image Attribute 'hist_un0'
hkey.un0 | Extract Image Attribute 'hkey_un0'
hkey.un0-method | Extract Image Attribute 'hkey_un0'
hkey.un0<- | Extract Image Attribute 'hkey_un0'
hkey.un0<--method | Extract Image Attribute 'hkey_un0'
hkey_un0 | Extract Image Attribute 'hkey_un0'
hkey_un0-method | Extract Image Attribute 'hkey_un0'
hkey_un0-methods | Extract Image Attribute 'hkey_un0'
hkey_un0-methods, | Extract Image Attribute 'hkey_un0'
hkey_un0<- | Extract Image Attribute 'hkey_un0'
hkey_un0<--method | Extract Image Attribute 'hkey_un0'
hotmetal | Hot Metal Color Table

## -- I --

image-method | Methods for Function 'image'
image-methods | Methods for Function 'image'
image.nifti | Methods for Function 'image'
img_data | Extract Image Attribute '.Data'
img_data-method | Extract Image Attribute '.Data'
img_data-methods | Extract Image Attribute '.Data'
img_data-methods, | Extract Image Attribute '.Data'
img_data<- | Extract Image Attribute '.Data'
img_data<--method | Extract Image Attribute '.Data'
integerTranslation | integerTranslation
intent.code | Extract Image Attribute 'intent_code'
intent.code-method | Extract Image Attribute 'intent_code'
intent.code<- | Extract Image Attribute 'intent_code'
intent.code<--method | Extract Image Attribute 'intent_code'
intent.name | Extract Image Attribute 'intent_name'
intent.name-method | Extract Image Attribute 'intent_name'
intent.name<- | Extract Image Attribute 'intent_name'
intent.name<--method | Extract Image Attribute 'intent_name'
intent.p1 | Extract Image Attribute 'intent_p1'
intent.p1-method | Extract Image Attribute 'intent_p1'
intent.p1<- | Extract Image Attribute 'intent_p1'
intent.p1<--method | Extract Image Attribute 'intent_p1'
intent.p2 | Extract Image Attribute 'intent_p2'
intent.p2-method | Extract Image Attribute 'intent_p2'
intent.p2<- | Extract Image Attribute 'intent_p2'
intent.p2<--method | Extract Image Attribute 'intent_p2'
intent.p3 | Extract Image Attribute 'intent_p3'
intent.p3-method | Extract Image Attribute 'intent_p3'
intent.p3<- | Extract Image Attribute 'intent_p3'
intent.p3<--method | Extract Image Attribute 'intent_p3'
intent_code | Extract Image Attribute 'intent_code'
intent_code-method | Extract Image Attribute 'intent_code'
intent_code-methods | Extract Image Attribute 'intent_code'
intent_code-methods, | Extract Image Attribute 'intent_code'
intent_code<- | Extract Image Attribute 'intent_code'
intent_code<--method | Extract Image Attribute 'intent_code'
intent_name | Extract Image Attribute 'intent_name'
intent_name-method | Extract Image Attribute 'intent_name'
intent_name-methods | Extract Image Attribute 'intent_name'
intent_name-methods, | Extract Image Attribute 'intent_name'
intent_name<- | Extract Image Attribute 'intent_name'
intent_name<--method | Extract Image Attribute 'intent_name'
intent_p1 | Extract Image Attribute 'intent_p1'
intent_p1-method | Extract Image Attribute 'intent_p1'
intent_p1-methods | Extract Image Attribute 'intent_p1'
intent_p1-methods, | Extract Image Attribute 'intent_p1'
intent_p1<- | Extract Image Attribute 'intent_p1'
intent_p1<--method | Extract Image Attribute 'intent_p1'
intent_p2 | Extract Image Attribute 'intent_p2'
intent_p2-method | Extract Image Attribute 'intent_p2'
intent_p2-methods | Extract Image Attribute 'intent_p2'
intent_p2-methods, | Extract Image Attribute 'intent_p2'
intent_p2<- | Extract Image Attribute 'intent_p2'
intent_p2<--method | Extract Image Attribute 'intent_p2'
intent_p3 | Extract Image Attribute 'intent_p3'
intent_p3-method | Extract Image Attribute 'intent_p3'
intent_p3-methods | Extract Image Attribute 'intent_p3'
intent_p3-methods, | Extract Image Attribute 'intent_p3'
intent_p3<- | Extract Image Attribute 'intent_p3'
intent_p3<--method | Extract Image Attribute 'intent_p3'
inverseReorient | Reorient Image using NIfTI header
invertIntegerTranslation | integerTranslation
is.afni | check object
is.anlz | check object
is.nifti | check object
is.niftiExtension | check object

## -- M --

magic | Extract Image Attribute 'magic'
magic-method | Extract Image Attribute 'magic'
magic-methods | Extract Image Attribute 'magic'
magic-methods, | Extract Image Attribute 'magic'
magic<- | Extract Image Attribute 'magic'
magic<--method | Extract Image Attribute 'magic'

## -- N --

newAuditTrail | Facilitate the Creation and Modification of Audit Trails
nifti | Constructor for NIfTI
nifti-class | Class "nifti"
nifti-operators | Operations for NIfTI Objects
niftiAuditTrail-class | Class "niftiAuditTrail"
niftiAuditTrailCreated | Facilitate the Creation and Modification of Audit Trails
niftiAuditTrailEvent | Facilitate the Creation and Modification of Audit Trails
niftiAuditTrailSystemNode | Facilitate the Creation and Modification of Audit Trails
niftiAuditTrailSystemNodeEvent | Facilitate the Creation and Modification of Audit Trails
niftiAuditTrailToExtension | Facilitate the Creation and Modification of Audit Trails
niftiExtension-class | Class "niftiExtension"
niftiExtensionSection-class | Class "niftiExtensionSection"
niftiExtensionToAuditTrail | Facilitate the Creation and Modification of Audit Trails
nifti_assign-methods | Methods for Function [<- in Package 'base'
nifti_header | readNIfTI
nii2oro | Convert RNifti niftiImage to oro.nifti nifti object
NSLI | Dimension Accessor Functions
nsli | Dimension Accessor Functions
NTIM | Dimension Accessor Functions
ntim | Dimension Accessor Functions

## -- O --

omax | Extract Image Attribute 'omax'
omax-method | Extract Image Attribute 'omax'
omax-methods | Extract Image Attribute 'omax'
omax-methods, | Extract Image Attribute 'omax'
omax<- | Extract Image Attribute 'omax'
omax<--method | Extract Image Attribute 'omax'
omin | Extract Image Attribute 'omin'
omin-method | Extract Image Attribute 'omin'
omin-methods | Extract Image Attribute 'omin'
omin-methods, | Extract Image Attribute 'omin'
omin<- | Extract Image Attribute 'omin'
omin<--method | Extract Image Attribute 'omin'
onefile | Creates the 'onefile' Specification for NIfTI
Ops-method | Operations for Objects in the ANALYZE and NIfTI classes
Ops-method | Operations for NIfTI Objects
orient | Extract Image Attribute 'orient'
orient-method | Extract Image Attribute 'orient'
orient-methods | Extract Image Attribute 'orient'
orient-methods, | Extract Image Attribute 'orient'
orient<- | Extract Image Attribute 'orient'
orient<--method | Extract Image Attribute 'orient'
orientation-methods | Extract NIfTI 3D Image Orientation
origin | Extract Image Attribute 'origin'
origin-method | Extract Image Attribute 'origin'
origin-methods | Extract Image Attribute 'origin'
origin-methods, | Extract Image Attribute 'origin'
origin<- | Extract Image Attribute 'origin'
origin<--method | Extract Image Attribute 'origin'
oro.nifti.info | Facilitate the Creation and Modification of Audit Trails
oro2nii | Convert oro.nifti nifti to RNifti niftiImage object
orthographic | Methods for Function 'orthographic' in Package 'dcemriS4'
orthographic-method | Methods for Function 'orthographic' in Package 'dcemriS4'
orthographic-methods | Methods for Function 'orthographic' in Package 'dcemriS4'
orthographic.nifti | Methods for Function 'orthographic' in Package 'dcemriS4'
overlay | Methods for Function overlay
overlay-method | Methods for Function overlay
overlay-methods | Methods for Function overlay
overlay.nifti | Methods for Function overlay

## -- P --

patient.id | Extract Image Attribute 'patient_id'
patient.id-method | Extract Image Attribute 'patient_id'
patient.id<- | Extract Image Attribute 'patient_id'
patient.id<--method | Extract Image Attribute 'patient_id'
patient_id | Extract Image Attribute 'patient_id'
patient_id-method | Extract Image Attribute 'patient_id'
patient_id-methods | Extract Image Attribute 'patient_id'
patient_id-methods, | Extract Image Attribute 'patient_id'
patient_id<- | Extract Image Attribute 'patient_id'
patient_id<--method | Extract Image Attribute 'patient_id'
performPermutation | Transform array with orthogonal permutation matrix
pixdim | Extract Image Attribute 'pixdim'
pixdim-method | Extract Image Attribute 'pixdim'
pixdim-methods | Extract Image Attribute 'pixdim'
pixdim-methods, | Extract Image Attribute 'pixdim'
pixdim<- | Extract Image Attribute 'pixdim'
pixdim<--method | Extract Image Attribute 'pixdim'

## -- Q --

qform | Extract NIfTI 3D Image Orientation
qform-method | Extract NIfTI 3D Image Orientation
qform-methods | Extract NIfTI 3D Image Orientation
qform.code | Extract Image Attribute 'qform_code'
qform.code-method | Extract Image Attribute 'qform_code'
qform.code<- | Extract Image Attribute 'qform_code'
qform.code<--method | Extract Image Attribute 'qform_code'
qform_code | Extract Image Attribute 'qform_code'
qform_code-method | Extract Image Attribute 'qform_code'
qform_code-methods | Extract Image Attribute 'qform_code'
qform_code-methods, | Extract Image Attribute 'qform_code'
qform_code<- | Extract Image Attribute 'qform_code'
qform_code<--method | Extract Image Attribute 'qform_code'
qoffset.x | Extract Image Attribute 'qoffset_x'
qoffset.x-method | Extract Image Attribute 'qoffset_x'
qoffset.x<- | Extract Image Attribute 'qoffset_x'
qoffset.x<--method | Extract Image Attribute 'qoffset_x'
qoffset.y | Extract Image Attribute 'qoffset_y'
qoffset.y-method | Extract Image Attribute 'qoffset_y'
qoffset.y<- | Extract Image Attribute 'qoffset_y'
qoffset.y<--method | Extract Image Attribute 'qoffset_y'
qoffset.z | Extract Image Attribute 'qoffset_z'
qoffset.z-method | Extract Image Attribute 'qoffset_z'
qoffset.z<- | Extract Image Attribute 'qoffset_z'
qoffset.z<--method | Extract Image Attribute 'qoffset_z'
qoffset_x | Extract Image Attribute 'qoffset_x'
qoffset_x-method | Extract Image Attribute 'qoffset_x'
qoffset_x-methods | Extract Image Attribute 'qoffset_x'
qoffset_x-methods, | Extract Image Attribute 'qoffset_x'
qoffset_x<- | Extract Image Attribute 'qoffset_x'
qoffset_x<--method | Extract Image Attribute 'qoffset_x'
qoffset_y | Extract Image Attribute 'qoffset_y'
qoffset_y-method | Extract Image Attribute 'qoffset_y'
qoffset_y-methods | Extract Image Attribute 'qoffset_y'
qoffset_y-methods, | Extract Image Attribute 'qoffset_y'
qoffset_y<- | Extract Image Attribute 'qoffset_y'
qoffset_y<--method | Extract Image Attribute 'qoffset_y'
qoffset_z | Extract Image Attribute 'qoffset_z'
qoffset_z-method | Extract Image Attribute 'qoffset_z'
qoffset_z-methods | Extract Image Attribute 'qoffset_z'
qoffset_z-methods, | Extract Image Attribute 'qoffset_z'
qoffset_z<- | Extract Image Attribute 'qoffset_z'
qoffset_z<--method | Extract Image Attribute 'qoffset_z'
quatern.b | Extract Image Attribute 'quatern_b'
quatern.b-method | Extract Image Attribute 'quatern_b'
quatern.b<- | Extract Image Attribute 'quatern_b'
quatern.b<--method | Extract Image Attribute 'quatern_b'
quatern.c | Extract Image Attribute 'quatern_c'
quatern.c-method | Extract Image Attribute 'quatern_c'
quatern.c<- | Extract Image Attribute 'quatern_c'
quatern.c<--method | Extract Image Attribute 'quatern_c'
quatern.d | Extract Image Attribute 'quatern_d'
quatern.d-method | Extract Image Attribute 'quatern_d'
quatern.d<- | Extract Image Attribute 'quatern_d'
quatern.d<--method | Extract Image Attribute 'quatern_d'
quaternion2mat44 | Convert Quaternion into a Rotation Matrix
quaternion2rotation | Convert Quaternion into a Rotation Matrix
quatern_b | Extract Image Attribute 'quatern_b'
quatern_b-method | Extract Image Attribute 'quatern_b'
quatern_b-methods | Extract Image Attribute 'quatern_b'
quatern_b-methods, | Extract Image Attribute 'quatern_b'
quatern_b<- | Extract Image Attribute 'quatern_b'
quatern_b<--method | Extract Image Attribute 'quatern_b'
quatern_c | Extract Image Attribute 'quatern_c'
quatern_c-method | Extract Image Attribute 'quatern_c'
quatern_c-methods | Extract Image Attribute 'quatern_c'
quatern_c-methods, | Extract Image Attribute 'quatern_c'
quatern_c<- | Extract Image Attribute 'quatern_c'
quatern_c<--method | Extract Image Attribute 'quatern_c'
quatern_d | Extract Image Attribute 'quatern_d'
quatern_d-method | Extract Image Attribute 'quatern_d'
quatern_d-methods | Extract Image Attribute 'quatern_d'
quatern_d-methods, | Extract Image Attribute 'quatern_d'
quatern_d<- | Extract Image Attribute 'quatern_d'
quatern_d<--method | Extract Image Attribute 'quatern_d'

## -- R --

readAFNI | readAFNI
readANALYZE | readANALYZE
readNIfTI | readNIfTI
regular | Extract Image Attribute 'regular'
regular-method | Extract Image Attribute 'regular'
regular-methods | Extract Image Attribute 'regular'
regular-methods, | Extract Image Attribute 'regular'
regular<- | Extract Image Attribute 'regular'
regular<--method | Extract Image Attribute 'regular'
reorient | Reorient Image using NIfTI header
resetSlopeIntercept | Change Intercept to 0 and Slope to 1 in NIfTI Object
rmgz | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmhdr | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmhdrgz | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmimg | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmimggz | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmnii | Remove File Extensions Around the NIfTI/ANALYZE Formats
rmniigz | Remove File Extensions Around the NIfTI/ANALYZE Formats

## -- S --

scannum | Extract Image Attribute 'scannum'
scannum-method | Extract Image Attribute 'scannum'
scannum-methods | Extract Image Attribute 'scannum'
scannum-methods, | Extract Image Attribute 'scannum'
scannum<- | Extract Image Attribute 'scannum'
scannum<--method | Extract Image Attribute 'scannum'
scl.inter | Extract Image Attribute 'scl_inter'
scl.inter-method | Extract Image Attribute 'scl_inter'
scl.inter<- | Extract Image Attribute 'scl_inter'
scl.inter<--method | Extract Image Attribute 'scl_inter'
scl.slope | Extract Image Attribute 'scl_slope'
scl.slope-method | Extract Image Attribute 'scl_slope'
scl.slope<- | Extract Image Attribute 'scl_slope'
scl.slope<--method | Extract Image Attribute 'scl_slope'
scl_inter | Extract Image Attribute 'scl_inter'
scl_inter-method | Extract Image Attribute 'scl_inter'
scl_inter-methods | Extract Image Attribute 'scl_inter'
scl_inter-methods, | Extract Image Attribute 'scl_inter'
scl_inter<- | Extract Image Attribute 'scl_inter'
scl_inter<--method | Extract Image Attribute 'scl_inter'
scl_slope | Extract Image Attribute 'scl_slope'
scl_slope-method | Extract Image Attribute 'scl_slope'
scl_slope-methods | Extract Image Attribute 'scl_slope'
scl_slope-methods, | Extract Image Attribute 'scl_slope'
scl_slope<- | Extract Image Attribute 'scl_slope'
scl_slope<--method | Extract Image Attribute 'scl_slope'
session.error | Extract Image Attribute 'session_error'
session.error-method | Extract Image Attribute 'session_error'
session.error<- | Extract Image Attribute 'session_error'
session.error<--method | Extract Image Attribute 'session_error'
session_error | Extract Image Attribute 'session_error'
session_error-method | Extract Image Attribute 'session_error'
session_error-methods | Extract Image Attribute 'session_error'
session_error-methods, | Extract Image Attribute 'session_error'
session_error<- | Extract Image Attribute 'session_error'
session_error<--method | Extract Image Attribute 'session_error'
sform | Extract NIfTI 3D Image Orientation
sform-method | Extract NIfTI 3D Image Orientation
sform-methods | Extract NIfTI 3D Image Orientation
sform.code | Extract Image Attribute 'sform_code'
sform.code-method | Extract Image Attribute 'sform_code'
sform.code<- | Extract Image Attribute 'sform_code'
sform.code<--method | Extract Image Attribute 'sform_code'
sform_code | Extract Image Attribute 'sform_code'
sform_code-method | Extract Image Attribute 'sform_code'
sform_code-methods | Extract Image Attribute 'sform_code'
sform_code-methods, | Extract Image Attribute 'sform_code'
sform_code<- | Extract Image Attribute 'sform_code'
sform_code<--method | Extract Image Attribute 'sform_code'
show-method | Class "afni"
show-method | Class "anlz"
show-method | Class "nifti"
sizeof.hdr | Extract Image Attribute 'sizeof_hdr'
sizeof.hdr-method | Extract Image Attribute 'sizeof_hdr'
sizeof_hdr | Extract Image Attribute 'sizeof_hdr'
sizeof_hdr-method | Extract Image Attribute 'sizeof_hdr'
sizeof_hdr-methods | Extract Image Attribute 'sizeof_hdr'
sizeof_hdr-methods, | Extract Image Attribute 'sizeof_hdr'
slice | Methods for Function 'slice'
slice-method | Methods for Function 'slice'
slice-methods | Methods for Function 'slice'
slice.code | Extract Image Attribute 'slice_code'
slice.code-method | Extract Image Attribute 'slice_code'
slice.code<- | Extract Image Attribute 'slice_code'
slice.code<--method | Extract Image Attribute 'slice_code'
slice.duration | Extract Image Attribute 'slice_duration'
slice.duration-method | Extract Image Attribute 'slice_duration'
slice.duration<- | Extract Image Attribute 'slice_duration'
slice.duration<--method | Extract Image Attribute 'slice_duration'
slice.end | Extract Image Attribute 'slice_end'
slice.end-method | Extract Image Attribute 'slice_end'
slice.end<- | Extract Image Attribute 'slice_end'
slice.end<--method | Extract Image Attribute 'slice_end'
slice.nifti | Methods for Function 'slice'
slice.start | Extract Image Attribute 'slice_start'
slice.start-method | Extract Image Attribute 'slice_start'
slice.start<- | Extract Image Attribute 'slice_start'
slice.start<--method | Extract Image Attribute 'slice_start'
slice_code | Extract Image Attribute 'slice_code'
slice_code-method | Extract Image Attribute 'slice_code'
slice_code-methods | Extract Image Attribute 'slice_code'
slice_code-methods, | Extract Image Attribute 'slice_code'
slice_code<- | Extract Image Attribute 'slice_code'
slice_code<--method | Extract Image Attribute 'slice_code'
slice_duration | Extract Image Attribute 'slice_duration'
slice_duration-method | Extract Image Attribute 'slice_duration'
slice_duration-methods | Extract Image Attribute 'slice_duration'
slice_duration-methods, | Extract Image Attribute 'slice_duration'
slice_duration<- | Extract Image Attribute 'slice_duration'
slice_duration<--method | Extract Image Attribute 'slice_duration'
slice_end | Extract Image Attribute 'slice_end'
slice_end-method | Extract Image Attribute 'slice_end'
slice_end-methods | Extract Image Attribute 'slice_end'
slice_end-methods, | Extract Image Attribute 'slice_end'
slice_end<- | Extract Image Attribute 'slice_end'
slice_end<--method | Extract Image Attribute 'slice_end'
slice_overlay | Methods for Function slice_overlay
slice_overlay-method | Methods for Function slice_overlay
slice_overlay-methods | Methods for Function slice_overlay
slice_overlay.nifti | Methods for Function slice_overlay
slice_start | Extract Image Attribute 'slice_start'
slice_start-method | Extract Image Attribute 'slice_start'
slice_start-methods | Extract Image Attribute 'slice_start'
slice_start-methods, | Extract Image Attribute 'slice_start'
slice_start<- | Extract Image Attribute 'slice_start'
slice_start<--method | Extract Image Attribute 'slice_start'
smax | Extract Image Attribute 'smax'
smax-method | Extract Image Attribute 'smax'
smax-methods | Extract Image Attribute 'smax'
smax-methods, | Extract Image Attribute 'smax'
smax<- | Extract Image Attribute 'smax'
smax<--method | Extract Image Attribute 'smax'
smin | Extract Image Attribute 'smin'
smin-method | Extract Image Attribute 'smin'
smin-methods | Extract Image Attribute 'smin'
smin-methods, | Extract Image Attribute 'smin'
smin<- | Extract Image Attribute 'smin'
smin<--method | Extract Image Attribute 'smin'
space.time2xyzt | Bitwise Conversion Subroutines
srow.x | Extract Image Attribute 'srow_x'
srow.x-method | Extract Image Attribute 'srow_x'
srow.x<- | Extract Image Attribute 'srow_x'
srow.x<--method | Extract Image Attribute 'srow_x'
srow.y | Extract Image Attribute 'srow_y'
srow.y-method | Extract Image Attribute 'srow_y'
srow.y<- | Extract Image Attribute 'srow_y'
srow.y<--method | Extract Image Attribute 'srow_y'
srow.z | Extract Image Attribute 'srow_z'
srow.z-method | Extract Image Attribute 'srow_z'
srow.z<- | Extract Image Attribute 'srow_z'
srow.z<--method | Extract Image Attribute 'srow_z'
srow_x | Extract Image Attribute 'srow_x'
srow_x-method | Extract Image Attribute 'srow_x'
srow_x-methods | Extract Image Attribute 'srow_x'
srow_x-methods, | Extract Image Attribute 'srow_x'
srow_x<- | Extract Image Attribute 'srow_x'
srow_x<--method | Extract Image Attribute 'srow_x'
srow_y | Extract Image Attribute 'srow_y'
srow_y-method | Extract Image Attribute 'srow_y'
srow_y-methods | Extract Image Attribute 'srow_y'
srow_y-methods, | Extract Image Attribute 'srow_y'
srow_y<- | Extract Image Attribute 'srow_y'
srow_y<--method | Extract Image Attribute 'srow_y'
srow_z | Extract Image Attribute 'srow_z'
srow_z-method | Extract Image Attribute 'srow_z'
srow_z-methods | Extract Image Attribute 'srow_z'
srow_z-methods, | Extract Image Attribute 'srow_z'
srow_z<- | Extract Image Attribute 'srow_z'
srow_z<--method | Extract Image Attribute 'srow_z'
start_field | Extract Image Attribute 'start_field'
start_field-method | Extract Image Attribute 'start_field'
start_field-methods | Extract Image Attribute 'start_field'
start_field-methods, | Extract Image Attribute 'start_field'
start_field<- | Extract Image Attribute 'start_field'
start_field<--method | Extract Image Attribute 'start_field'

## -- T --

tim.colors | Tim's Useful Color Table
toffset | Extract Image Attribute 'toffset'
toffset-method | Extract Image Attribute 'toffset'
toffset-methods | Extract Image Attribute 'toffset'
toffset-methods, | Extract Image Attribute 'toffset'
toffset<- | Extract Image Attribute 'toffset'
toffset<--method | Extract Image Attribute 'toffset'
translateCoordinate | Translate Voxel Coordinates

## -- U --

unused1 | Extract Image Attribute 'unused1'
unused1-method | Extract Image Attribute 'unused1'
unused1-methods | Extract Image Attribute 'unused1'
unused1-methods, | Extract Image Attribute 'unused1'
unused1<- | Extract Image Attribute 'unused1'
unused1<--method | Extract Image Attribute 'unused1'

## -- V --

verified | Extract Image Attribute 'verified'
verified-method | Extract Image Attribute 'verified'
verified-methods | Extract Image Attribute 'verified'
verified-methods, | Extract Image Attribute 'verified'
verified<- | Extract Image Attribute 'verified'
verified<--method | Extract Image Attribute 'verified'
views | Extract Image Attribute 'views'
views-method | Extract Image Attribute 'views'
views-methods | Extract Image Attribute 'views'
views-methods, | Extract Image Attribute 'views'
views<- | Extract Image Attribute 'views'
views<--method | Extract Image Attribute 'views'
vols.added | Extract Image Attribute 'vols_added'
vols.added-method | Extract Image Attribute 'vols_added'
vols.added<- | Extract Image Attribute 'vols_added'
vols.added<--method | Extract Image Attribute 'vols_added'
vols_added | Extract Image Attribute 'vols_added'
vols_added-method | Extract Image Attribute 'vols_added'
vols_added-methods | Extract Image Attribute 'vols_added'
vols_added-methods, | Extract Image Attribute 'vols_added'
vols_added<- | Extract Image Attribute 'vols_added'
vols_added<--method | Extract Image Attribute 'vols_added'
vox.offset | Extract Image Attribute 'vox_offset'
vox.offset-method | Extract Image Attribute 'vox_offset'
vox.offset<- | Extract Image Attribute 'vox_offset'
vox.offset<--method | Extract Image Attribute 'vox_offset'
vox.units | Extract Image Attribute 'vox_units'
vox.units-method | Extract Image Attribute 'vox_units'
vox.units<- | Extract Image Attribute 'vox_units'
vox.units<--method | Extract Image Attribute 'vox_units'
voxdim | Gets Voxel Dimensions
voxres | Gets Voxel Resolution
vox_offset | Extract Image Attribute 'vox_offset'
vox_offset-method | Extract Image Attribute 'vox_offset'
vox_offset-methods | Extract Image Attribute 'vox_offset'
vox_offset-methods, | Extract Image Attribute 'vox_offset'
vox_offset<- | Extract Image Attribute 'vox_offset'
vox_offset<--method | Extract Image Attribute 'vox_offset'
vox_units | Extract Image Attribute 'vox_units'
vox_units-method | Extract Image Attribute 'vox_units'
vox_units-methods | Extract Image Attribute 'vox_units'
vox_units-methods, | Extract Image Attribute 'vox_units'
vox_units<- | Extract Image Attribute 'vox_units'
vox_units<--method | Extract Image Attribute 'vox_units'

## -- W --

writeAFNI | writeAFNI
writeAFNI-method | writeAFNI
writeAFNI-methods | writeAFNI
writeANALYZE | writeANALYZE
writeANALYZE-method | writeANALYZE
writeANALYZE-methods | writeANALYZE
writeNIfTI | writeNIfTI
writeNIfTI-method | writeNIfTI
writeNIfTI-methods | writeNIfTI

## -- X --

xyzt.units | Extract Image Attribute 'xyzt_units'
xyzt.units-method | Extract Image Attribute 'xyzt_units'
xyzt.units<- | Extract Image Attribute 'xyzt_units'
xyzt.units<--method | Extract Image Attribute 'xyzt_units'
xyzt2space | Bitwise Conversion Subroutines
xyzt2time | Bitwise Conversion Subroutines
xyzt_units | Extract Image Attribute 'xyzt_units'
xyzt_units-method | Extract Image Attribute 'xyzt_units'
xyzt_units-methods | Extract Image Attribute 'xyzt_units'
xyzt_units-methods, | Extract Image Attribute 'xyzt_units'
xyzt_units<- | Extract Image Attribute 'xyzt_units'
xyzt_units<--method | Extract Image Attribute 'xyzt_units'

## -- Z --

zero_trans | Change Intercept to 0 and Slope to 1 in NIfTI Object

## -- misc --

[<--method | Methods for Function [<- in Package 'base'
[<--methods | Methods for Function [<- in Package 'base'