impy
2.1.0
Tutorial
Axes in impy
Command Line Usage
API References
impy
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Index
Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
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X
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Z
A
add() (impy.viewer.viewer.napariViewers method)
add_axes() (in module impy.utils.axesop)
add_dask() (in module impy.viewer.utils)
add_label() (impy.arrays.label.Label method)
add_labeledarray() (in module impy.viewer.utils)
add_labels() (in module impy.viewer.utils)
add_paths() (in module impy.viewer.utils)
add_points() (in module impy.viewer.utils)
add_surface() (impy.viewer.viewer.napariViewers method)
add_table() (impy.viewer.viewer.napariViewers method)
add_tracks() (in module impy.viewer.utils)
additional_props (impy.arrays.bases.metaarray.MetaArray attribute)
(impy.arrays.lazy.LazyImgArray attribute)
(impy.arrays.phasearray.PhaseArray attribute)
(impy.arrays.specials.PropArray attribute)
affine() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
append_label() (impy.arrays.labeledarray.LabeledArray method)
apply() (impy.collections.DataDict method)
(impy.collections.DataList method)
apply_dask_func() (impy.arrays.lazy.LazyImgArray method)
arange() (in module impy.core)
area_closing() (impy.arrays.imgarray.ImgArray method)
area_opening() (impy.arrays.imgarray.ImgArray method)
argmax_nd() (impy.arrays.bases.metaarray.MetaArray method)
array() (in module impy.core)
as_exp() (impy.arrays.phasearray.PhaseArray method)
as_float() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
as_frame() (impy.arrays.specials.PropArray method)
as_img_type() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
as_larger_type() (impy.arrays.label.Label method)
as_path() (impy.frame.frames.TrackFrame method)
as_standard_type() (impy.frame.frames.AxesFrame method)
as_uint16() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
as_uint8() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
asarray() (in module impy.core)
aslazy() (in module impy.core)
axes (impy.arrays.axesmixin.AxesMixin property)
(impy.arrays.imgarray.ImgArray attribute)
(impy.viewer.viewer.napariViewers property)
AxesFrame (class in impy.frame.frames)
AxesMixin (class in impy.arrays.axesmixin)
axis_targeted_slicing() (in module impy.utils.slicer)
axisof() (impy.arrays.axesmixin.AxesMixin method)
(impy.viewer.viewer.napariViewers method)
B
best_dtype() (in module impy.arrays.label)
bind (class in impy.binder)
binning() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
(impy.arrays.phasearray.PhaseArray method)
border (impy.arrays.phasearray.PhaseArray attribute)
bound (impy.binder.bind attribute)
broadcast_arrays() (in module impy.core)
broadcast_to() (impy.arrays.bases.metaarray.MetaArray method)
C
centroid_sm() (impy.arrays.imgarray.ImgArray method)
check_filter_func() (in module impy.arrays.imgarray)
check_input_and_output() (in module impy.utils.deco)
check_input_and_output_lazy() (in module impy.utils.deco)
check_nd() (in module impy.utils.misc)
chunk_info (impy.arrays.lazy.LazyImgArray property)
chunksize (impy.arrays.lazy.LazyImgArray property)
chunksizeof() (impy.arrays.lazy.LazyImgArray method)
chunksizesof() (impy.arrays.lazy.LazyImgArray method)
circular_mask() (in module impy.core)
clip() (impy.arrays.imgarray.ImgArray method)
closing() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
coef_filter() (impy.arrays.imgarray.ImgArray method)
col_axes (impy.frame.frames.AxesFrame property)
complement_axes() (in module impy.utils.axesop)
ComplexArrayView (class in impy.viewer.utils)
compute() (impy.arrays.lazy.LazyImgArray method)
convex_hull() (impy.arrays.imgarray.ImgArray method)
convolve() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
corner_harris() (impy.arrays.imgarray.ImgArray method)
corner_peaks() (impy.arrays.imgarray.ImgArray method)
count_neighbors() (impy.arrays.imgarray.ImgArray method)
crop_center() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
crop_kernel() (impy.arrays.labeledarray.LabeledArray method)
cupy_dispatcher() (in module impy.array_api)
current_slice (impy.viewer.viewer.napariViewers property)
cursor_pos (impy.viewer.viewer.napariViewers property)
cursor_to_pixel() (impy.viewer.viewer.napariViewers method)
curve_fit() (impy.arrays.specials.PropArray method)
D
data_raw (impy.viewer.utils.ComplexArrayView property)
DataDict (class in impy.collections)
DataList (class in impy.collections)
deg2rad() (impy.arrays.phasearray.PhaseArray method)
delete_label() (impy.arrays.label.Label method)
diagonal_gaussian() (in module impy.utils.gauss)
DiagonalGaussian (class in impy.utils.gauss)
diameter_closing() (impy.arrays.imgarray.ImgArray method)
diameter_opening() (impy.arrays.imgarray.ImgArray method)
dilation() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
dims_to_spatial_axes() (in module impy.utils.deco)
distance_map() (impy.arrays.imgarray.ImgArray method)
dog_filter() (impy.arrays.imgarray.ImgArray method)
doh_filter() (impy.arrays.imgarray.ImgArray method)
drift_correction() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
dtype (impy.arrays.lazy.LazyImgArray property)
(impy.viewer.utils.ComplexArrayView property)
E
edge_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
edge_grad() (impy.arrays.imgarray.ImgArray method)
empty() (in module impy.core)
emsd() (impy.frame.frames.TrackFrame method)
enhance_contrast() (impy.arrays.imgarray.ImgArray method)
entropy_filter() (impy.arrays.imgarray.ImgArray method)
erosion() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
estimate_sigma() (impy.arrays.imgarray.ImgArray method)
expand_labels() (impy.arrays.label.Label method)
extract() (impy.arrays.labeledarray.LabeledArray method)
F
fft() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
fill_hole() (impy.arrays.imgarray.ImgArray method)
filter_stubs() (impy.frame.frames.TrackFrame method)
find_corners() (impy.arrays.imgarray.ImgArray method)
find_first_appeared() (in module impy.utils.axesop)
find_sm() (impy.arrays.imgarray.ImgArray method)
fit() (impy.utils.gauss.DiagonalGaussian method)
flood() (impy.arrays.imgarray.ImgArray method)
focus_map() (impy.arrays.imgarray.ImgArray method)
for_each_channel() (impy.arrays.labeledarray.LabeledArray method)
for_params() (impy.arrays.labeledarray.LabeledArray method)
fourier_ncc() (in module impy.correlation)
fourier_shell_correlation() (in module impy.correlation)
fourier_zncc() (in module impy.correlation)
front_image() (in module impy.viewer.utils)
fsc() (in module impy.correlation)
ft_pcc_landscape() (in module impy.correlation)
ft_pcc_maximum() (in module impy.correlation)
ft_pcc_maximum_with_corr() (in module impy.correlation)
full() (in module impy.core)
G
gabor_angle() (impy.arrays.imgarray.ImgArray method)
gabor_filter() (impy.arrays.imgarray.ImgArray method)
gauss_correction() (impy.arrays.imgarray.ImgArray method)
gauss_sm() (impy.arrays.imgarray.ImgArray method)
gaussfit() (impy.arrays.imgarray.ImgArray method)
Gaussian (class in impy.utils.gauss)
gaussian_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
gaussian_kernel() (in module impy.core)
GaussianBackground (class in impy.utils.gauss)
GaussianParticle (class in impy.utils.gauss)
GB (impy.arrays.lazy.LazyImgArray property)
gb (impy.arrays.lazy.LazyImgArray property)
generate() (impy.utils.gauss.DiagonalGaussian method)
get() (impy.viewer.viewer.napariViewers method)
get_a_selected_layer() (in module impy.viewer.utils)
get_axes_tuple() (in module impy.arrays.axesmixin)
get_coords() (impy.frame.frames.AxesFrame method)
get_viewer_scale() (in module impy.viewer.utils)
glcm_props() (impy.arrays.imgarray.ImgArray method)
goto() (impy.viewer.viewer.napariViewers method)
H
hessian_angle() (impy.arrays.imgarray.ImgArray method)
hessian_eig() (impy.arrays.imgarray.ImgArray method)
hessian_eigval() (impy.arrays.imgarray.ImgArray method)
highpass_filter() (impy.arrays.imgarray.ImgArray method)
hist() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.specials.PropArray method)
I
ifft() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
ImgArray (class in impy.arrays.imgarray)
implements() (impy.arrays.bases.metaarray.MetaArray class method)
ImportOnRequest (class in impy.utils.utilcls)
impy
module
impy.array_api
module
impy.arrays
module
impy.arrays.axesmixin
module
impy.arrays.bases
module
impy.arrays.bases.metaarray
module
impy.arrays.bases.overload
module
impy.arrays.imgarray
module
impy.arrays.label
module
impy.arrays.labeledarray
module
impy.arrays.lazy
module
impy.arrays.phasearray
module
impy.arrays.specials
module
impy.axes
module
impy.binder
module
impy.collections
module
impy.core
module
impy.correlation
module
impy.frame
module
impy.frame.frames
module
impy.io
module
impy.random
module
impy.utils
module
impy.utils.axesop
module
impy.utils.deco
module
impy.utils.gauss
module
impy.utils.misc
module
impy.utils.slicer
module
impy.utils.utilcls
module
impy.viewer
module
impy.viewer.utils
module
impy.viewer.viewer
module
imread() (in module impy.core)
(in module impy.io)
imread_collection() (in module impy.core)
imread_dask() (in module impy.io)
imsave() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
(in module impy.io)
imsd() (impy.frame.frames.TrackFrame method)
imshow() (impy.arrays.label.Label method)
(impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.phasearray.PhaseArray method)
imshow_comparewith() (impy.arrays.labeledarray.LabeledArray method)
increment() (impy.arrays.label.Label method)
increment_iter() (impy.arrays.label.Label method)
insert() (impy.collections.DataList method)
itemsize (impy.arrays.lazy.LazyImgArray property)
iter() (impy.arrays.axesmixin.AxesMixin method)
(impy.frame.frames.AxesFrame method)
iter_layer() (in module impy.viewer.utils)
iter_selected_layer() (in module impy.viewer.utils)
iter_slice() (in module impy.arrays.lazy)
K
kalman_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
L
Label (class in impy.arrays.label)
label() (impy.arrays.labeledarray.LabeledArray method)
label_if() (impy.arrays.labeledarray.LabeledArray method)
label_threshold() (impy.arrays.imgarray.ImgArray method)
LabeledArray (class in impy.arrays.labeledarray)
labels (impy.arrays.labeledarray.LabeledArray property)
laplacian_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
largest_zeros() (in module impy.utils.misc)
last_added (impy.binder.bind attribute)
layer_to_impy_object() (in module impy.viewer.utils)
layers (impy.viewer.viewer.napariViewers property)
lazy_imread() (in module impy.core)
LazyImgArray (class in impy.arrays.lazy)
lbp() (impy.arrays.imgarray.ImgArray method)
length() (impy.frame.frames.PathFrame method)
link() (impy.frame.frames.MarkerFrame method)
local_dft() (impy.arrays.imgarray.ImgArray method)
local_power_spectra() (impy.arrays.imgarray.ImgArray method)
log_filter() (impy.arrays.imgarray.ImgArray method)
lowpass_conv_filter() (impy.arrays.imgarray.ImgArray method)
lowpass_filter() (impy.arrays.imgarray.ImgArray method)
lucy() (impy.arrays.imgarray.ImgArray method)
lucy_tv() (impy.arrays.imgarray.ImgArray method)
M
make_world_scale() (in module impy.viewer.utils)
manders_coloc() (in module impy.correlation)
map_coordinates() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.phasearray.PhaseArray method)
mark_reader() (in module impy.io)
mark_writer() (in module impy.io)
MarkerFrame (class in impy.frame.frames)
mean_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
(impy.arrays.phasearray.PhaseArray method)
median_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
MetaArray (class in impy.arrays.bases.metaarray)
metadata (impy.arrays.axesmixin.AxesMixin property)
(impy.arrays.bases.metaarray.MetaArray property)
(impy.arrays.imgarray.ImgArray attribute)
(impy.arrays.lazy.LazyImgArray property)
module
impy
impy.array_api
impy.arrays
impy.arrays.axesmixin
impy.arrays.bases
impy.arrays.bases.metaarray
impy.arrays.bases.overload
impy.arrays.imgarray
impy.arrays.label
impy.arrays.labeledarray
impy.arrays.lazy
impy.arrays.phasearray
impy.arrays.specials
impy.axes
impy.binder
impy.collections
impy.core
impy.correlation
impy.frame
impy.frame.frames
impy.io
impy.random
impy.utils
impy.utils.axesop
impy.utils.deco
impy.utils.gauss
impy.utils.misc
impy.utils.slicer
impy.utils.utilcls
impy.viewer
impy.viewer.utils
impy.viewer.viewer
msd() (impy.frame.frames.TrackFrame method)
mu (impy.utils.gauss.DiagonalGaussian property)
mu_inrange() (impy.utils.gauss.Gaussian method)
N
name (impy.arrays.bases.metaarray.MetaArray property)
(impy.arrays.lazy.LazyImgArray property)
napariViewers (class in impy.viewer.viewer)
nbytes (impy.viewer.utils.ComplexArrayView property)
ncc() (in module impy.correlation)
ncc_filter() (impy.arrays.imgarray.ImgArray method)
ndim (impy.arrays.axesmixin.AxesMixin attribute)
(impy.arrays.lazy.LazyImgArray property)
(impy.utils.gauss.DiagonalGaussian property)
(impy.viewer.utils.ComplexArrayView property)
nmi() (in module impy.correlation)
normal() (in module impy.random)
NotMe (class in impy.arrays.labeledarray)
NP_DISPATCH (impy.arrays.bases.metaarray.MetaArray attribute)
np_normalize_axis_tuple() (in module impy.arrays.bases.overload)
O
ones() (in module impy.core)
opening() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.label.Label method)
(impy.arrays.lazy.LazyImgArray method)
optimize() (impy.arrays.label.Label method)
P
pad() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
pad_defocus() (impy.arrays.imgarray.ImgArray method)
params (impy.utils.gauss.DiagonalGaussian property)
PathFrame (class in impy.frame.frames)
pathprops() (impy.arrays.labeledarray.LabeledArray method)
pcc_landscape() (in module impy.correlation)
pcc_maximum() (in module impy.correlation)
pcc_maximum_with_corr() (in module impy.correlation)
peak_local_max() (impy.arrays.imgarray.ImgArray method)
pearson_coloc() (in module impy.correlation)
periodicity (impy.arrays.phasearray.PhaseArray property)
PhaseArray (class in impy.arrays.phasearray)
plot() (impy.arrays.specials.PropArray method)
pointprops() (impy.arrays.labeledarray.LabeledArray method)
polar_pcc_maximum() (in module impy.correlation)
polar_pcc_maximum_with_corr() (in module impy.correlation)
power_spectra() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
proj() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.label.Label method)
(impy.arrays.lazy.LazyImgArray method)
(impy.frame.frames.AxesFrame method)
proj_labels() (impy.arrays.labeledarray.LabeledArray method)
PropArray (class in impy.arrays.specials)
propname (impy.arrays.specials.PropArray attribute)
R
rad2deg() (impy.arrays.phasearray.PhaseArray method)
radial_profile() (impy.arrays.imgarray.ImgArray method)
random() (in module impy.random)
random_uint16() (in module impy.random)
random_uint8() (in module impy.random)
random_walker() (impy.arrays.imgarray.ImgArray method)
range (impy.arrays.labeledarray.LabeledArray property)
read_meta() (in module impy.core)
rechunk() (impy.arrays.lazy.LazyImgArray method)
regionprops() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.phasearray.PhaseArray method)
relabel() (impy.arrays.label.Label method)
release() (impy.arrays.lazy.LazyImgArray method)
remove_edges() (impy.arrays.labeledarray.LabeledArray method)
remove_fine_objects() (impy.arrays.imgarray.ImgArray method)
remove_large_objects() (impy.arrays.imgarray.ImgArray method)
remove_skeleton_structure() (impy.arrays.imgarray.ImgArray method)
rescale() (impy.arrays.imgarray.ImgArray method)
(impy.utils.gauss.DiagonalGaussian method)
rescale_intensity() (impy.arrays.imgarray.ImgArray method)
reshape() (impy.arrays.bases.metaarray.MetaArray method)
reslice() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.phasearray.PhaseArray method)
rof_filter() (impy.arrays.imgarray.ImgArray method)
rolling_ball() (impy.arrays.imgarray.ImgArray method)
rotate() (impy.arrays.imgarray.ImgArray method)
rotated_crop() (impy.arrays.labeledarray.LabeledArray method)
S
same_dtype() (in module impy.utils.deco)
sample_image() (in module impy.core)
sample_points() (impy.arrays.labeledarray.SegmentedLine method)
scale (impy.arrays.axesmixin.AxesMixin property)
(impy.arrays.imgarray.ImgArray attribute)
(impy.frame.frames.AxesFrame property)
(impy.viewer.viewer.napariViewers property)
scale_unit (impy.arrays.axesmixin.AxesMixin property)
SegmentedLine (class in impy.arrays.labeledarray)
selection (impy.viewer.viewer.napariViewers property)
set_axis_label() (impy.arrays.axesmixin.AxesMixin method)
set_border() (impy.arrays.phasearray.PhaseArray method)
set_scale() (impy.arrays.axesmixin.AxesMixin method)
(impy.arrays.labeledarray.LabeledArray method)
(impy.frame.frames.AxesFrame method)
setCupy() (impy.array_api.XP method)
setNumpy() (impy.array_api.XP method)
sg (impy.utils.gauss.DiagonalGaussian property)
sg_inrange() (impy.utils.gauss.Gaussian method)
shape (impy.arrays.axesmixin.AxesMixin attribute)
(impy.arrays.bases.metaarray.MetaArray property)
(impy.arrays.lazy.LazyImgArray property)
(impy.viewer.utils.ComplexArrayView property)
shape_info (impy.arrays.axesmixin.AxesMixin property)
shift() (impy.utils.gauss.DiagonalGaussian method)
size (impy.arrays.lazy.LazyImgArray property)
sizeof() (impy.arrays.axesmixin.AxesMixin method)
sizesof() (impy.arrays.axesmixin.AxesMixin method)
skeletonize() (impy.arrays.imgarray.ImgArray method)
slice_axes() (in module impy.utils.axesop)
smooth_mask() (impy.arrays.imgarray.ImgArray method)
solve_slicer() (in module impy.utils.slicer)
sort() (impy.frame.frames.AxesFrame method)
sort_axes() (impy.arrays.bases.metaarray.MetaArray method)
(impy.arrays.lazy.LazyImgArray method)
source (impy.arrays.bases.metaarray.MetaArray property)
(impy.arrays.imgarray.ImgArray attribute)
(impy.arrays.lazy.LazyImgArray property)
spatial_shape (impy.arrays.axesmixin.AxesMixin property)
specify() (impy.arrays.labeledarray.LabeledArray method)
spline_filter() (impy.arrays.labeledarray.LabeledArray method)
(impy.arrays.lazy.LazyImgArray method)
split() (impy.arrays.bases.metaarray.MetaArray method)
(impy.arrays.labeledarray.LabeledArray method)
(impy.frame.frames.AxesFrame method)
split_pixel_unit() (impy.arrays.imgarray.ImgArray method)
square() (in module impy.utils.gauss)
start() (impy.viewer.viewer.napariViewers method)
std_filter() (impy.arrays.imgarray.ImgArray method)
stepof() (impy.viewer.viewer.napariViewers method)
stokes() (impy.arrays.imgarray.ImgArray method)
str_to_slice() (in module impy.utils.slicer)
stretch() (impy.arrays.imgarray.ImgArray method)
structure_tensor_eig() (impy.arrays.imgarray.ImgArray method)
structure_tensor_eigval() (impy.arrays.imgarray.ImgArray method)
switch_slice() (in module impy.utils.axesop)
T
T (impy.arrays.bases.metaarray.MetaArray property)
threshold() (impy.arrays.imgarray.ImgArray method)
tile() (impy.arrays.labeledarray.LabeledArray method)
tiled_lowpass_filter() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
to_labels() (in module impy.viewer.utils)
tophat() (impy.arrays.imgarray.ImgArray method)
tp_no_verbose() (in module impy.frame.frames)
track_drift() (impy.arrays.imgarray.ImgArray method)
(impy.arrays.lazy.LazyImgArray method)
(impy.frame.frames.TrackFrame method)
track_template() (impy.arrays.imgarray.ImgArray method)
TrackFrame (class in impy.frame.frames)
transpose() (impy.arrays.bases.metaarray.MetaArray method)
(impy.arrays.lazy.LazyImgArray method)
U
unit (impy.arrays.phasearray.PhaseArray attribute)
unmix() (impy.arrays.imgarray.ImgArray method)
V
value (impy.arrays.axesmixin.AxesMixin attribute)
(impy.arrays.bases.metaarray.MetaArray property)
(impy.arrays.lazy.LazyImgArray attribute)
viewer (impy.viewer.viewer.napariViewers property)
viewer_imread() (in module impy.viewer.utils)
voronoi() (impy.arrays.imgarray.ImgArray method)
W
watershed() (impy.arrays.imgarray.ImgArray method)
wave_num() (in module impy.arrays.imgarray)
wavelet_denoising() (impy.arrays.imgarray.ImgArray method)
wiener() (impy.arrays.imgarray.ImgArray method)
X
XP (class in impy.array_api)
Z
zeros() (in module impy.core)
zncc() (in module impy.correlation)
zncc_landscape() (in module impy.correlation)
zncc_maximum() (in module impy.correlation)
zncc_maximum_with_corr() (in module impy.correlation)