NiBabel

Access a cacophony of neuro-imaging file formats

Reggie -- the one

Index

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

A

add_codes() (nibabel.volumeutils.Recoder method)
add_gifti_data_array() (nibabel.gifti.gifti.GiftiImage method)
aff2axcodes() (in module nibabel.orientations)
aff_from_hdr() (in module nibabel.trackvis)
aff_to_hdr() (in module nibabel.trackvis)
allopen() (in module nibabel.volumeutils)
alpha (nibabel.gifti.gifti.GiftiLabel attribute)
AnalyzeHeader (class in nibabel.analyze)
AnalyzeImage (class in nibabel.analyze)
angle_axis2euler() (in module nibabel.eulerangles)
angle_axis2mat() (in module nibabel.quaternions)
angle_axis2quat() (in module nibabel.quaternions)
apply_orientation() (in module nibabel.orientations)
apply_read_scaling() (in module nibabel.volumeutils)
array_from_file() (in module nibabel.volumeutils)
array_to_file() (in module nibabel.volumeutils)
ArrayProxy (class in nibabel.arrayproxy)
as_analyze_map() (nibabel.analyze.AnalyzeHeader method)
as_closest_canonical() (in module nibabel.funcs)

B

B2q() (in module nibabel.nicom.dwiparams)
b_matrix() (nibabel.nicom.dicomwrappers.SiemensWrapper static method)
BatteryRunner (class in nibabel.batteryrunners)
best_write_scale_ftype() (in module nibabel.volumeutils)
better_float_of() (in module nibabel.volumeutils)
blue (nibabel.gifti.gifti.GiftiLabel attribute)

C

check_fix() (nibabel.batteryrunners.BatteryRunner method)
check_only() (nibabel.batteryrunners.BatteryRunner method)
cleanup() (nibabel.tmpdirs.TemporaryDirectory method)
concat_images() (in module nibabel.funcs)
conjugate() (in module nibabel.quaternions)
coordsys (nibabel.gifti.gifti.GiftiDataArray attribute)
copy() (nibabel.nifti1.Nifti1Header method)
(nibabel.parrec.PARRECHeader method)
(nibabel.spatialimages.Header method)
copy_file_map() (in module nibabel.fileholders)
count() (nibabel.nifti1.Nifti1Extensions method)

D

data (nibabel.gifti.gifti.GiftiDataArray attribute)
data_from_fileobj() (nibabel.analyze.AnalyzeHeader method)
(nibabel.parrec.PARRECHeader method)
(nibabel.spatialimages.Header method)
data_tag() (in module nibabel.gifti.gifti)
data_to_fileobj() (nibabel.analyze.AnalyzeHeader method)
(nibabel.spatialimages.Header method)
dataspace (nibabel.gifti.gifti.GiftiCoordSystem attribute)
datatype (nibabel.gifti.gifti.GiftiDataArray attribute)
default_structarr() (nibabel.analyze.AnalyzeHeader class method)
(nibabel.nifti1.Nifti1Header class method)
(nibabel.spm99analyze.SpmAnalyzeHeader class method)
dims (nibabel.gifti.gifti.GiftiDataArray attribute)
DtypeMapper (class in nibabel.volumeutils)

E

empty_header() (in module nibabel.trackvis)
encoding (nibabel.gifti.gifti.GiftiDataArray attribute)
endian (nibabel.gifti.gifti.GiftiDataArray attribute)
euler2angle_axis() (in module nibabel.eulerangles)
euler2mat() (in module nibabel.eulerangles)
euler2quat() (in module nibabel.eulerangles)
ext_fname (nibabel.gifti.gifti.GiftiDataArray attribute)
ext_offset (nibabel.gifti.gifti.GiftiDataArray attribute)
exts_klass (nibabel.nifti1.Nifti1Header attribute)
eye() (in module nibabel.quaternions)

F

FileHolder (class in nibabel.fileholders)
filename (nibabel.gifti.gifti.GiftiImage attribute)
filespec_to_file_map() (nibabel.spatialimages.SpatialImage class method)
filespec_to_files() (nibabel.spatialimages.SpatialImage class method)
fillpositive() (in module nibabel.quaternions)
finite_range() (in module nibabel.volumeutils)
flip_axis() (in module nibabel.orientations)
four_to_three() (in module nibabel.funcs)
from_array() (nibabel.gifti.gifti.GiftiDataArray class method)
from_dict() (nibabel.gifti.gifti.GiftiMetaData class method)
from_file() (nibabel.trackvis.TrackvisFile class method)
from_file_map() (nibabel.analyze.AnalyzeImage class method)
(nibabel.minc.MincImage class method)
(nibabel.parrec.PARRECImage class method)
(nibabel.spatialimages.SpatialImage class method)
(nibabel.spm99analyze.Spm99AnalyzeImage class method)
from_filename() (nibabel.spatialimages.SpatialImage class method)
from_fileobj() (nibabel.nifti1.Nifti1Extensions class method)
(nibabel.nifti1.Nifti1Header class method)
(nibabel.parrec.PARRECHeader class method)
(nibabel.spatialimages.Header class method)
from_files() (nibabel.spatialimages.SpatialImage class method)
from_filespec() (nibabel.spatialimages.SpatialImage class method)
from_header() (nibabel.analyze.AnalyzeHeader class method)
(nibabel.parrec.PARRECHeader class method)
(nibabel.spatialimages.Header class method)
from_image() (nibabel.spatialimages.SpatialImage class method)

G

get() (nibabel.nicom.dicomwrappers.Wrapper method)
get_acq_mat_txt() (in module nibabel.nicom.csareader)
get_affine() (nibabel.minc.MincFile method)
(nibabel.nicom.dicomwrappers.Wrapper method)
(nibabel.parrec.PARRECHeader method)
(nibabel.spatialimages.SpatialImage method)
(nibabel.trackvis.TrackvisFile method)
get_b_matrix() (in module nibabel.nicom.csareader)
get_b_value() (in module nibabel.nicom.csareader)
get_base_affine() (nibabel.analyze.AnalyzeHeader method)
(nibabel.spatialimages.Header method)
get_best_affine() (nibabel.analyze.AnalyzeHeader method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spm99analyze.Spm99AnalyzeHeader method)
get_code() (nibabel.nifti1.Nifti1Extension method)
get_codes() (nibabel.nifti1.Nifti1Extensions method)
get_content() (nibabel.nifti1.Nifti1Extension method)
get_csa_header() (in module nibabel.nicom.csareader)
get_data() (nibabel.nicom.dicomwrappers.MosaicWrapper method)
(nibabel.nicom.dicomwrappers.Wrapper method)
(nibabel.spatialimages.SpatialImage method)
get_data_dtype() (nibabel.analyze.AnalyzeHeader method)
(nibabel.analyze.AnalyzeImage method)
(nibabel.minc.MincFile method)
(nibabel.spatialimages.Header method)
(nibabel.spatialimages.SpatialImage method)
get_data_offset() (nibabel.analyze.AnalyzeHeader method)
get_data_scaling() (nibabel.parrec.PARRECHeader method)
get_data_shape() (nibabel.analyze.AnalyzeHeader method)
(nibabel.minc.MincFile method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spatialimages.Header method)
get_data_shape_in_file() (nibabel.parrec.PARRECHeader method)
get_default_affine() (nibabel.spatialimages.Header method)
get_dim_info() (nibabel.nifti1.Nifti1Header method)
get_filename() (nibabel.spatialimages.SpatialImage method)
get_g_vector() (in module nibabel.nicom.csareader)
get_header() (nibabel.analyze.AnalyzeImage method)
(nibabel.spatialimages.SpatialImage method)
get_ice_dims() (in module nibabel.nicom.csareader)
get_info() (in module nibabel)
get_intent() (nibabel.nifti1.Nifti1Header method)
get_labels_as_dict() (nibabel.gifti.gifti.GiftiLabelTable method)
get_labeltable() (nibabel.gifti.gifti.GiftiImage method)
get_metadata() (nibabel.gifti.gifti.GiftiDataArray method)
(nibabel.gifti.gifti.GiftiImage method)
(nibabel.gifti.gifti.GiftiMetaData method)
get_n_mosaic() (in module nibabel.nicom.csareader)
get_n_slices() (nibabel.nifti1.Nifti1Header method)
get_ndim() (nibabel.parrec.PARRECHeader method)
get_origin_affine() (nibabel.spm99analyze.Spm99AnalyzeHeader method)
get_pixel_array() (nibabel.nicom.dicomwrappers.Wrapper method)
get_prepare_fileobj() (nibabel.fileholders.FileHolder method)
get_qform() (nibabel.nifti1.Nifti1Header method)
(nibabel.nifti1.Nifti1Pair method)
get_qform_quaternion() (nibabel.nifti1.Nifti1Header method)
get_rgba() (nibabel.gifti.gifti.GiftiLabel method)
get_scalar() (in module nibabel.nicom.csareader)
get_scaled_data() (nibabel.minc.MincFile method)
get_sform() (nibabel.nifti1.Nifti1Header method)
(nibabel.nifti1.Nifti1Pair method)
get_shape() (nibabel.spatialimages.SpatialImage method)
get_sizeondisk() (nibabel.nifti1.Nifti1Extension method)
(nibabel.nifti1.Nifti1Extensions method)
get_slice_duration() (nibabel.nifti1.Nifti1Header method)
get_slice_normal() (in module nibabel.nicom.csareader)
get_slice_orientation() (nibabel.parrec.PARRECHeader method)
get_slice_times() (nibabel.nifti1.Nifti1Header method)
get_slope_inter() (nibabel.analyze.AnalyzeHeader method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spm2analyze.Spm2AnalyzeHeader method)
(nibabel.spm99analyze.SpmAnalyzeHeader method)
get_value_label() (nibabel.analyze.AnalyzeHeader method)
get_vector() (in module nibabel.nicom.csareader)
get_voxel_size() (nibabel.parrec.PARRECHeader method)
get_xyzt_units() (nibabel.nifti1.Nifti1Header method)
get_zooms() (nibabel.analyze.AnalyzeHeader method)
(nibabel.minc.MincFile method)
(nibabel.spatialimages.Header method)
getArraysFromIntent() (nibabel.gifti.gifti.GiftiImage method)
GiftiCoordSystem (class in nibabel.gifti.gifti)
GiftiDataArray (class in nibabel.gifti.gifti)
GiftiImage (class in nibabel.gifti.gifti)
GiftiLabel (class in nibabel.gifti.gifti)
GiftiLabelTable (class in nibabel.gifti.gifti)
GiftiMetaData (class in nibabel.gifti.gifti)
GiftiNVPairs (class in nibabel.gifti.gifti)
green (nibabel.gifti.gifti.GiftiLabel attribute)
guessed_endian() (nibabel.analyze.AnalyzeHeader class method)

H

Header (class in nibabel.spatialimages)
header_class (nibabel.analyze.AnalyzeImage attribute)
(nibabel.nifti1.Nifti1Image attribute)
(nibabel.nifti1.Nifti1Pair attribute)
(nibabel.parrec.PARRECImage attribute)
(nibabel.spatialimages.SpatialImage attribute)
(nibabel.spm2analyze.Spm2AnalyzeImage attribute)
(nibabel.spm99analyze.Spm99AnalyzeImage attribute)

I

image_orient_patient() (nibabel.nicom.dicomwrappers.Wrapper static method)
image_position() (nibabel.nicom.dicomwrappers.MosaicWrapper static method)
(nibabel.nicom.dicomwrappers.Wrapper static method)
image_shape() (nibabel.nicom.dicomwrappers.MosaicWrapper static method)
(nibabel.nicom.dicomwrappers.Wrapper static method)
ImageArrayProxy (nibabel.analyze.AnalyzeImage attribute)
ind_ord (nibabel.gifti.gifti.GiftiDataArray attribute)
instance_number() (nibabel.nicom.dicomwrappers.Wrapper static method)
instance_to_filename() (nibabel.spatialimages.SpatialImage class method)
int_scinter_ftype() (in module nibabel.volumeutils)
InTemporaryDirectory (class in nibabel.tmpdirs)
intent (nibabel.gifti.gifti.GiftiDataArray attribute)
inv_ornt_aff() (in module nibabel.orientations)
inverse() (in module nibabel.quaternions)
io_orientation() (in module nibabel.orientations)
is_mosaic() (in module nibabel.nicom.csareader)
is_same_series() (nibabel.nicom.dicomwrappers.Wrapper method)
isunit() (in module nibabel.quaternions)

K

key (nibabel.gifti.gifti.GiftiLabel attribute)
keys() (nibabel.volumeutils.DtypeMapper method)
(nibabel.volumeutils.Recoder method)

L

label (nibabel.gifti.gifti.GiftiLabel attribute)
load() (in module nibabel.loadsave)
(in module nibabel.nifti1)
(nibabel.spatialimages.SpatialImage class method)
log_raise() (nibabel.batteryrunners.Report method)

M

make_dt_codes() (in module nibabel.volumeutils)
make_file_map() (nibabel.spatialimages.SpatialImage class method)
mat2euler() (in module nibabel.eulerangles)
mat2quat() (in module nibabel.quaternions)
message (nibabel.batteryrunners.Report attribute)
meta (nibabel.gifti.gifti.GiftiDataArray attribute)
MincFile (class in nibabel.minc)
MincImage (class in nibabel.minc)
MincImage.ImageArrayProxy (class in nibabel.minc)
mosaic_to_nii() (in module nibabel.nicom.dicomreaders)
MosaicWrapper (class in nibabel.nicom.dicomwrappers)
mult() (in module nibabel.quaternions)

N

name (nibabel.gifti.gifti.GiftiNVPairs attribute)
nearest_pos_semi_def() (in module nibabel.nicom.dwiparams)
nearly_equivalent() (in module nibabel.quaternions)
nibabel (module)
nibabel.analyze (module)
nibabel.arrayproxy (module)
nibabel.batteryrunners (module)
nibabel.eulerangles (module)
nibabel.fileholders (module)
nibabel.filename_parser (module)
nibabel.funcs (module)
nibabel.gifti (module)
nibabel.gifti.gifti (module)
nibabel.gifti.giftiio (module)
nibabel.imageclasses (module)
nibabel.imageglobals (module)
nibabel.loadsave (module)
nibabel.minc (module)
nibabel.nicom (module)
nibabel.nicom.csareader (module)
nibabel.nicom.dicomreaders (module)
nibabel.nicom.dicomwrappers (module)
nibabel.nicom.dwiparams (module)
nibabel.nicom.structreader (module)
nibabel.nifti1 (module)
nibabel.onetime (module)
nibabel.orientations (module)
nibabel.parrec (module)
nibabel.quaternions (module)
nibabel.spatialimages (module)
nibabel.spm2analyze (module)
nibabel.spm99analyze (module)
nibabel.tmpdirs (module)
nibabel.trackvis (module)
nibabel.volumeutils (module)
Nifti1Extension (class in nibabel.nifti1)
Nifti1Extensions (class in nibabel.nifti1)
Nifti1Header (class in nibabel.nifti1)
Nifti1Image (class in nibabel.nifti1)
Nifti1Pair (class in nibabel.nifti1)
Nifti1PairHeader (class in nibabel.nifti1)
none_or_close() (in module nibabel.nicom.dicomwrappers)
norm() (in module nibabel.quaternions)
nt_str() (in module nibabel.nicom.csareader)
num_dim (nibabel.gifti.gifti.GiftiDataArray attribute)
numDA (nibabel.gifti.gifti.GiftiImage attribute)

O

OneTimeProperty (class in nibabel.onetime)
ornt2axcodes() (in module nibabel.orientations)

P

PARRECHeader (class in nibabel.parrec)
PARRECImage (class in nibabel.parrec)
PARRECImage.ImageArrayProxy (class in nibabel.parrec)
parse_filename() (in module nibabel.filename_parser)
parse_PAR_header() (in module nibabel.parrec)
pretty_mapping() (in module nibabel.volumeutils)
print_summary() (nibabel.gifti.gifti.GiftiCoordSystem method)
(nibabel.gifti.gifti.GiftiDataArray method)
(nibabel.gifti.gifti.GiftiImage method)
(nibabel.gifti.gifti.GiftiLabelTable method)
(nibabel.gifti.gifti.GiftiMetaData method)

Q

q_vector() (nibabel.nicom.dicomwrappers.SiemensWrapper static method)
quat2angle_axis() (in module nibabel.quaternions)
quat2euler() (in module nibabel.eulerangles)
quat2mat() (in module nibabel.quaternions)

R

raw_data_from_fileobj() (nibabel.analyze.AnalyzeHeader method)
(nibabel.parrec.PARRECHeader method)
read() (in module nibabel.gifti.giftiio)
(in module nibabel.nicom.csareader)
(in module nibabel.trackvis)
(nibabel.nicom.structreader.Unpacker method)
read_img_data() (in module nibabel.loadsave)
read_mosaic_dir() (in module nibabel.nicom.dicomreaders)
read_mosaic_dwi_dir() (in module nibabel.nicom.dicomreaders)
rec2dict() (in module nibabel.volumeutils)
Recoder (class in nibabel.volumeutils)
red (nibabel.gifti.gifti.GiftiLabel attribute)
remove_gifti_data_array() (nibabel.gifti.gifti.GiftiImage method)
remove_gifti_data_array_by_intent() (nibabel.gifti.gifti.GiftiImage method)
Report (class in nibabel.batteryrunners)
rotate_vector() (in module nibabel.quaternions)
rotation_matrix() (nibabel.nicom.dicomwrappers.Wrapper static method)

S

same_file_as() (nibabel.fileholders.FileHolder method)
save() (in module nibabel.loadsave)
(in module nibabel.nifti1)
seek_tell() (in module nibabel.volumeutils)
series_signature() (nibabel.nicom.dicomwrappers.SiemensWrapper static method)
(nibabel.nicom.dicomwrappers.Wrapper static method)
set_affine() (nibabel.trackvis.TrackvisFile method)
set_data_dtype() (nibabel.analyze.AnalyzeHeader method)
(nibabel.analyze.AnalyzeImage method)
(nibabel.spatialimages.Header method)
(nibabel.spatialimages.SpatialImage method)
set_data_shape() (nibabel.analyze.AnalyzeHeader method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spatialimages.Header method)
set_dim_info() (nibabel.nifti1.Nifti1Header method)
set_filename() (nibabel.spatialimages.SpatialImage method)
set_intent() (nibabel.nifti1.Nifti1Header method)
set_labeltable() (nibabel.gifti.gifti.GiftiImage method)
set_metadata() (nibabel.gifti.gifti.GiftiImage method)
set_origin_from_affine() (nibabel.spm99analyze.Spm99AnalyzeHeader method)
set_qform() (nibabel.nifti1.Nifti1Header method)
(nibabel.nifti1.Nifti1Pair method)
set_sform() (nibabel.nifti1.Nifti1Header method)
(nibabel.nifti1.Nifti1Pair method)
set_slice_duration() (nibabel.nifti1.Nifti1Header method)
set_slice_times() (nibabel.nifti1.Nifti1Header method)
set_slope_inter() (nibabel.analyze.AnalyzeHeader method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spm99analyze.SpmAnalyzeHeader method)
set_xyzt_units() (nibabel.nifti1.Nifti1Header method)
set_zooms() (nibabel.analyze.AnalyzeHeader method)
(nibabel.spatialimages.Header method)
setattr_on_read() (in module nibabel.onetime)
shape (nibabel.arrayproxy.ArrayProxy attribute)
(nibabel.parrec.PARRECImage.ImageArrayProxy attribute)
(nibabel.spatialimages.SpatialImage attribute)
shape_zoom_affine() (in module nibabel.volumeutils)
SiemensWrapper (class in nibabel.nicom.dicomwrappers)
slice_indicator() (nibabel.nicom.dicomwrappers.Wrapper static method)
slice_normal() (nibabel.nicom.dicomwrappers.SiemensWrapper static method)
(nibabel.nicom.dicomwrappers.Wrapper static method)
slices_to_series() (in module nibabel.nicom.dicomreaders)
SpatialImage (class in nibabel.spatialimages)
splitext_addext() (in module nibabel.filename_parser)
Spm2AnalyzeHeader (class in nibabel.spm2analyze)
Spm2AnalyzeImage (class in nibabel.spm2analyze)
Spm99AnalyzeHeader (class in nibabel.spm99analyze)
Spm99AnalyzeImage (class in nibabel.spm99analyze)
SpmAnalyzeHeader (class in nibabel.spm99analyze)
squeeze_image() (in module nibabel.funcs)

T

TemporaryDirectory (class in nibabel.tmpdirs)
to_file() (nibabel.trackvis.TrackvisFile method)
to_file_map() (nibabel.analyze.AnalyzeImage method)
(nibabel.spatialimages.SpatialImage method)
(nibabel.spm99analyze.Spm99AnalyzeImage method)
to_filename() (nibabel.spatialimages.SpatialImage method)
to_files() (nibabel.spatialimages.SpatialImage method)
to_filespec() (nibabel.spatialimages.SpatialImage method)
to_xml() (nibabel.gifti.gifti.GiftiCoordSystem method)
(nibabel.gifti.gifti.GiftiDataArray method)
(nibabel.gifti.gifti.GiftiImage method)
(nibabel.gifti.gifti.GiftiLabelTable method)
(nibabel.gifti.gifti.GiftiMetaData method)
to_xml_close() (nibabel.gifti.gifti.GiftiDataArray method)
to_xml_open() (nibabel.gifti.gifti.GiftiDataArray method)
TrackvisFile (class in nibabel.trackvis)
types_filenames() (in module nibabel.filename_parser)

U

unpack() (nibabel.nicom.structreader.Unpacker method)
Unpacker (class in nibabel.nicom.structreader)
update_header() (nibabel.analyze.AnalyzeImage method)
(nibabel.nifti1.Nifti1Image method)
(nibabel.nifti1.Nifti1Pair method)
(nibabel.spatialimages.SpatialImage method)

V

value (nibabel.gifti.gifti.GiftiNVPairs attribute)
value_set() (nibabel.volumeutils.Recoder method)
values() (nibabel.volumeutils.DtypeMapper method)
version (nibabel.gifti.gifti.GiftiImage attribute)
voxel_sizes() (nibabel.nicom.dicomwrappers.Wrapper static method)

W

working_type() (in module nibabel.volumeutils)
Wrapper (class in nibabel.nicom.dicomwrappers)
wrapper_from_data() (in module nibabel.nicom.dicomwrappers)
wrapper_from_file() (in module nibabel.nicom.dicomwrappers)
write() (in module nibabel.gifti.giftiio)
(in module nibabel.trackvis)
write_raise() (nibabel.batteryrunners.Report method)
write_to() (nibabel.nifti1.Nifti1Extension method)
(nibabel.nifti1.Nifti1Extensions method)
(nibabel.nifti1.Nifti1Header method)
(nibabel.spatialimages.Header method)
write_zeros() (in module nibabel.volumeutils)

X

xform (nibabel.gifti.gifti.GiftiCoordSystem attribute)
xformspace (nibabel.gifti.gifti.GiftiCoordSystem attribute)