Index

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)