BrightEyes-ISM
Usage
Description
Installation
Dependencies
Importing
Example
Citing
Modules
analysis
simulation
dataio
BrightEyes-ISM
Index
Index
A
|
B
|
C
|
D
|
F
|
G
|
H
|
I
|
K
|
L
|
M
|
N
|
P
|
R
|
S
|
T
|
U
|
V
|
W
|
X
|
Z
A
abe_ampli (simSettings attribute)
abe_index (simSettings attribute)
aberration (simSettings property)
airy_to_hex() (in module brighteyes_ism.simulation.detector)
airy_unit (simSettings property)
alpha (simSettings property)
APR() (in module brighteyes_ism.analysis.APR_lib)
ArgMaxND() (in module brighteyes_ism.analysis.Tools_lib)
B
beta (simSettings attribute)
bitfile (metadata attribute)
blur() (ImageSimulator method)
brighteyes_ism
module
brighteyes_ism.analysis
module
brighteyes_ism.analysis.APR_lib
module
brighteyes_ism.analysis.Deconv_lib
module
brighteyes_ism.analysis.FocusISM_lib
module
brighteyes_ism.analysis.FRC_lib
module
brighteyes_ism.analysis.Graph_lib
module
brighteyes_ism.analysis.Tools_lib
module
brighteyes_ism.dataio
module
brighteyes_ism.dataio.mcs
module
brighteyes_ism.simulation
module
brighteyes_ism.simulation.detector
module
brighteyes_ism.simulation.PSF_sim
module
brighteyes_ism.simulation.simulator
module
brighteyes_ism.simulation.Tubulin_sim
module
C
calib_x (metadata attribute)
calib_y (metadata attribute)
calib_z (metadata attribute)
check_saturation() (in module brighteyes_ism.analysis.Tools_lib)
circle() (in module brighteyes_ism.simulation.detector)
clean_image (ImageSimulator attribute)
colorbar() (ColorMap2D method)
ColorMap2D (class in brighteyes_ism.analysis.Graph_lib)
comment (metadata attribute)
convolution_matrix() (in module brighteyes_ism.analysis.Deconv_lib)
copy() (GridParameters method)
(ImageSimulator method)
(simSettings method)
CropEdge() (in module brighteyes_ism.analysis.Tools_lib)
custom_detector() (in module brighteyes_ism.simulation.detector)
D
deconv_RL_FFT() (in module brighteyes_ism.analysis.Deconv_lib)
deconv_Wiener() (in module brighteyes_ism.analysis.Deconv_lib)
deconv_Wiener_FFT() (in module brighteyes_ism.analysis.Deconv_lib)
depth_of_field (simSettings property)
depth_stack() (in module brighteyes_ism.analysis.Graph_lib)
det_coords() (in module brighteyes_ism.simulation.detector)
dfd_activate (metadata attribute)
dfd_freq (metadata attribute)
(metadata property)
dfd_nbins (metadata attribute)
(metadata property)
disk2d() (in module brighteyes_ism.analysis.Deconv_lib)
DownSample() (in module brighteyes_ism.analysis.Tools_lib)
dt (metadata attribute)
duration (metadata property)
dx (metadata property)
dy (metadata property)
dz (metadata property)
F
f (simSettings property)
field (simSettings attribute)
fingerprint() (in module brighteyes_ism.analysis.Tools_lib)
fingerprint_model() (in module brighteyes_ism.analysis.FocusISM_lib)
fit_to_gaussian() (in module brighteyes_ism.analysis.Tools_lib)
FitFingerprint() (in module brighteyes_ism.analysis.FocusISM_lib)
fixed_threshold() (in module brighteyes_ism.analysis.FRC_lib)
focusISM() (in module brighteyes_ism.analysis.FocusISM_lib)
forward() (ImageSimulator method)
framerate (metadata property)
frametime (metadata property)
FRC() (in module brighteyes_ism.analysis.FRC_lib)
FRC_MultiImg_RL_FFT() (in module brighteyes_ism.analysis.Deconv_lib)
FRC_MultiImg_RL_FFT_2() (in module brighteyes_ism.analysis.Deconv_lib)
FRC_resolution() (in module brighteyes_ism.analysis.FRC_lib)
functionPhTub() (in module brighteyes_ism.simulation.Tubulin_sim)
FWHM() (in module brighteyes_ism.analysis.Tools_lib)
G
gamma (simSettings attribute)
gauss2d() (in module brighteyes_ism.analysis.Deconv_lib)
gaussian() (in module brighteyes_ism.analysis.FocusISM_lib)
gaussian_model() (in module brighteyes_ism.analysis.FocusISM_lib)
GaussMultVar() (in module brighteyes_ism.analysis.Tools_lib)
geometry (GridParameters attribute)
getElipsoid() (in module brighteyes_ism.simulation.Tubulin_sim)
GridParameters (class in brighteyes_ism.simulation.PSF_sim)
ground_truth (ImageSimulator property)
H
h (simSettings attribute)
hann2d() (in module brighteyes_ism.analysis.APR_lib)
(in module brighteyes_ism.analysis.FRC_lib)
hex_grid() (in module brighteyes_ism.simulation.detector)
hex_to_airy() (in module brighteyes_ism.simulation.detector)
hexagon() (in module brighteyes_ism.simulation.detector)
I
I0 (simSettings attribute)
image (ImageSimulator attribute)
image() (ColorMap2D method)
ImageSimulator (class in brighteyes_ism.simulation.simulator)
intensity_filament (tubSettings attribute)
K
kl_divergence() (in module brighteyes_ism.analysis.Tools_lib)
L
line_select_callback() (Selector method)
load() (in module brighteyes_ism.dataio.mcs)
low_pass() (in module brighteyes_ism.analysis.Tools_lib)
M
M (GridParameters attribute)
mask (simSettings attribute)
mask_sampl (simSettings attribute)
metadata (class in brighteyes_ism.dataio.mcs)
metadata_load() (in module brighteyes_ism.dataio.mcs)
metadata_print() (in module brighteyes_ism.dataio.mcs)
mirroring (GridParameters attribute)
module
brighteyes_ism
brighteyes_ism.analysis
brighteyes_ism.analysis.APR_lib
brighteyes_ism.analysis.Deconv_lib
brighteyes_ism.analysis.FocusISM_lib
brighteyes_ism.analysis.FRC_lib
brighteyes_ism.analysis.Graph_lib
brighteyes_ism.analysis.Tools_lib
brighteyes_ism.dataio
brighteyes_ism.dataio.mcs
brighteyes_ism.simulation
brighteyes_ism.simulation.detector
brighteyes_ism.simulation.PSF_sim
brighteyes_ism.simulation.simulator
brighteyes_ism.simulation.Tubulin_sim
MultiImg_RL_FFT() (in module brighteyes_ism.analysis.Deconv_lib)
MultiImg_RL_FFT_2() (in module brighteyes_ism.analysis.Deconv_lib)
N
N (GridParameters attribute)
n (simSettings attribute)
n_filament (tubSettings attribute)
na (simSettings attribute)
name (GridParameters attribute)
nbin (metadata attribute)
,
[1]
Nch (GridParameters property)
ndatapoints (metadata property)
nmicroim (metadata property)
normalized_absolute_difference() (in module brighteyes_ism.analysis.Tools_lib)
nrep (metadata attribute)
nsigma_threshold() (in module brighteyes_ism.analysis.FRC_lib)
Nx (GridParameters attribute)
nx (metadata attribute)
ny (metadata attribute)
Nz (GridParameters attribute)
nz (metadata attribute)
P
PadDataset() (in module brighteyes_ism.analysis.Deconv_lib)
parse_dfd_metadata_from_bitfile_name() (metadata static method)
phantom (ImageSimulator attribute)
pinhole_array() (in module brighteyes_ism.simulation.detector)
pinhole_shape (GridParameters attribute)
pixel_fit_1() (in module brighteyes_ism.analysis.FocusISM_lib)
pixel_fit_2() (in module brighteyes_ism.analysis.FocusISM_lib)
plotFRC() (in module brighteyes_ism.analysis.FRC_lib)
PlotShiftVectors() (in module brighteyes_ism.analysis.Graph_lib)
point_cloud_from_img() (in module brighteyes_ism.analysis.Tools_lib)
poisson_noise() (ImageSimulator method)
Print() (GridParameters method)
(metadata method)
(simSettings method)
psf (ImageSimulator attribute)
PSF_FRC() (in module brighteyes_ism.analysis.Deconv_lib)
pxdim (GridParameters attribute)
pxdwelltime (metadata property)
pxpitch (GridParameters attribute)
pxsizex (GridParameters attribute)
pxszizes (metadata property)
R
radial_profile() (in module brighteyes_ism.analysis.FRC_lib)
RadialSpectrum() (in module brighteyes_ism.analysis.Tools_lib)
radius_filament (tubSettings attribute)
rangex (GridParameters property)
(metadata attribute)
rangey (metadata attribute)
rangez (GridParameters property)
(metadata attribute)
Reassignment() (in module brighteyes_ism.analysis.APR_lib)
rect_grid() (in module brighteyes_ism.simulation.detector)
Reorder() (in module brighteyes_ism.analysis.Tools_lib)
rotation (GridParameters attribute)
S
select() (Selector method)
Selector (class in brighteyes_ism.analysis.FocusISM_lib)
ShiftVectors() (in module brighteyes_ism.analysis.APR_lib)
show_flim() (in module brighteyes_ism.analysis.Graph_lib)
ShowDataset() (in module brighteyes_ism.analysis.Graph_lib)
ShowFingerprint() (in module brighteyes_ism.analysis.Graph_lib)
ShowImg() (in module brighteyes_ism.analysis.Graph_lib)
ShowStack() (in module brighteyes_ism.analysis.Graph_lib)
sigmoid() (in module brighteyes_ism.analysis.Tools_lib)
signal (ImageSimulator attribute)
simSettings (class in brighteyes_ism.simulation.PSF_sim)
singlePSF() (in module brighteyes_ism.simulation.PSF_sim)
smooth() (in module brighteyes_ism.analysis.FRC_lib)
SPAD_PSF_2D() (in module brighteyes_ism.simulation.PSF_sim)
SPAD_PSF_3D() (in module brighteyes_ism.simulation.PSF_sim)
spad_size() (GridParameters method)
square() (in module brighteyes_ism.simulation.detector)
StackSlider() (in module brighteyes_ism.analysis.Graph_lib)
sted_pulse (simSettings attribute)
sted_sat (simSettings attribute)
sted_tau (simSettings attribute)
T
thetaVariation() (in module brighteyes_ism.simulation.Tubulin_sim)
timeFRC() (in module brighteyes_ism.analysis.FRC_lib)
transform_detector() (in module brighteyes_ism.simulation.detector)
tubSettings (class in brighteyes_ism.simulation.Tubulin_sim)
U
UnpadDataset() (in module brighteyes_ism.analysis.Deconv_lib)
UpSample() (in module brighteyes_ism.analysis.Tools_lib)
V
version (metadata attribute)
W
w0 (simSettings attribute)
wavefront (simSettings property)
wl (simSettings attribute)
X
xy_dimension (tubSettings attribute)
xy_pixel_size (tubSettings attribute)
xz_dimension (tubSettings attribute)
Z
z_pixel (tubSettings attribute)