Index

A

aggregate_flux() (in module smlmlp) aggregate_ratio() (in module smlmlp) aim_frames_per_segment (smlmlp.Config property) aim_kde_bandwidth_nm (smlmlp.Config property) aim_lambda_smooth (smlmlp.Config property) aim_learning_rate (smlmlp.Config property) aim_max_iter (smlmlp.Config property) aim_outlier_fraction (smlmlp.Config property) aim_recompute (smlmlp.Config property)

aim_tol (smlmlp.Config property) analysis() (in module smlmlp) append() (smlmlp.Locs method) append_df() (in module smlmlp) associate_consecutive_frames() (in module smlmlp) associate_consecutive_frames_radius() (in module smlmlp) associate_density() (in module smlmlp) associate_different_channels() (in module smlmlp) associate_molecules() (in module smlmlp) azimuth_method (smlmlp.Config property)

B

biplane_x_channels (smlmlp.Config property) biplane_y_channels (smlmlp.Config property) bkgd_combination() (in module smlmlp) bkgd_spatial_mean() (in module smlmlp) bkgd_spatial_opening() (in module smlmlp)

bkgd_temporal_median() (in module smlmlp) blink_association_radius_nm (smlmlp.Config property) blink_spatial_psf() (in module smlmlp) blink_temporal_on() (in module smlmlp) blink_z_association_radius_nm (smlmlp.Config property) block() (in module smlmlp)

C

calibration_convert() (in module smlmlp) calibration_flim() (in module smlmlp) calibration_fuse() (in module smlmlp) calibration_spheres() (in module smlmlp) calibration_zstacks() (in module smlmlp) cameras (smlmlp.Config attribute) cameras_bboxes (smlmlp.Config property) cameras_bits (smlmlp.Config property) cameras_camera_indices (smlmlp.Config property) cameras_constructor_gains (smlmlp.Config property) cameras_experimental_gains (smlmlp.Config property) cameras_gains (smlmlp.Config property) cameras_nchannels (smlmlp.Config property) cameras_npixels (smlmlp.Config property) cameras_pixels_nm (smlmlp.Config property) cameras_QE (smlmlp.Config property) cameras_read_noises (smlmlp.Config property) channel_association_radius_nm (smlmlp.Config property) channels (smlmlp.Config property) channels_bboxes (smlmlp.Config property) channels_bits (smlmlp.Config property) channels_camera_indices (smlmlp.Config property) channels_channel_indices (smlmlp.Config property) channels_constructor_gains (smlmlp.Config property) channels_crops_pix (smlmlp.Config property) channels_default_crops_nm (smlmlp.Config property) channels_experimental_gains (smlmlp.Config property) channels_fit_inits (smlmlp.Config property) channels_fit_models (smlmlp.Config property) channels_fit_thetas (smlmlp.Config property) channels_flips (smlmlp.Config property) channels_gains (smlmlp.Config property) channels_image_transform_matrices (smlmlp.Config property) channels_locs_transform_matrices (smlmlp.Config property) channels_nchannels (smlmlp.Config property) channels_npixels (smlmlp.Config property) channels_pixels_nm (smlmlp.Config property) channels_psf_3d_spline_coeffs (smlmlp.Config property) channels_psf_3d_xtangents (smlmlp.Config property) channels_psf_3d_ytangents (smlmlp.Config property) channels_psf_3d_ztangents (smlmlp.Config property)

channels_psf_diameters_nm (smlmlp.Config property) channels_psf_fwhms_nm (smlmlp.Config property) channels_psf_kernels (smlmlp.Config property) channels_psf_radii_nm (smlmlp.Config property) channels_psf_sigmas_nm (smlmlp.Config property) channels_psf_spline_coeffs (smlmlp.Config property) channels_psf_thetas_deg (smlmlp.Config property) channels_psf_xsigmas_nm (smlmlp.Config property) channels_psf_xtangents (smlmlp.Config property) channels_psf_ysigmas_nm (smlmlp.Config property) channels_psf_ytangents (smlmlp.Config property) channels_QE (smlmlp.Config property) channels_read_noises (smlmlp.Config property) channels_rotations_deg (smlmlp.Config property) channels_shapes (smlmlp.Config property) channels_spatial_kernel_shapes (smlmlp.Config property) channels_spatial_kernels (smlmlp.Config property) channels_weighted_integrations (smlmlp.Config property) channels_wf_images (smlmlp.Config property) channels_x_shears (smlmlp.Config property) channels_x_shifts_nm (smlmlp.Config property) channels_y_shears (smlmlp.Config property) channels_y_shifts_nm (smlmlp.Config property) chunk (smlmlp.Config property) clustering_dbscan() (in module smlmlp) combine() (smlmlp.Locs method) comet_frames_per_segment (smlmlp.Config property) comet_max_drift_nm (smlmlp.Config property) comet_recompute (smlmlp.Config property) comet_tol (smlmlp.Config property) Config (class in smlmlp) config (smlmlp.Locs attribute) config_kwargs (smlmlp.Locs property) config_source (smlmlp.Locs property) crop() (smlmlp.Locs method) crop_individual_extract() (in module smlmlp) crop_nm (smlmlp.Config property) crop_remove_bkgd() (in module smlmlp) crosscorr_frames_per_segment (smlmlp.Config property) crosscorr_outlier_fraction (smlmlp.Config property) crosscorr_recompute (smlmlp.Config property) cuda (smlmlp.Config property)

D

dbscan_eps (smlmlp.Config property) dbscan_min_points (smlmlp.Config property) demix2d_method (smlmlp.Config property) demix_histogram() (in module smlmlp) demix_method (smlmlp.Config property) detect_gain() (in module smlmlp) detect_snr() (in module smlmlp) detect_spatial_maxima() (in module smlmlp) detections (smlmlp.Locs attribute) (smlmlp.Locs property) df_dict (smlmlp.Locs attribute), [1] distribution (smlmlp.Config property) do_spatial_filter (smlmlp.Config property)

do_spatial_mean (smlmlp.Config property) do_spatial_opening (smlmlp.Config property) do_temporal_filter (smlmlp.Config property) do_temporal_median (smlmlp.Config property) donald_x_channels (smlmlp.Config property) donald_y_channels (smlmlp.Config property) dpflim_x_channels (smlmlp.Config property) dpflim_y_channels (smlmlp.Config property) drift_aim() (in module smlmlp) drift_comet() (in module smlmlp) drift_crosscorr() (in module smlmlp) drift_meanshift() (in module smlmlp) drift_method (smlmlp.Config property) dyes (smlmlp.Config property)

E

estimator (smlmlp.Config property)

exposure_ms (smlmlp.Config property)

F

filter() (smlmlp.Locs method) FOV_max_um (smlmlp.Config property)

frame_bytes (smlmlp.Config property) frames_per_sequence (smlmlp.Config property)

G

glob_pixel_nm (smlmlp.Config property) globdet_channels() (in module smlmlp) globdet_groups (smlmlp.Config property) globdet_local_maxima() (in module smlmlp)

globdet_mode (smlmlp.Config property) globdet_snr() (in module smlmlp) globdet_use (smlmlp.Config property) globloc_fit() (in module smlmlp) globloc_use (smlmlp.Config property)

I

iflim_x_channels (smlmlp.Config property) iflim_y_channels (smlmlp.Config property) image_colmap() (in module smlmlp) image_picker() (in module smlmlp) image_pixel() (in module smlmlp) image_smlm() (in module smlmlp)

image_smlm3d() (in module smlmlp) image_stackmap() (in module smlmlp) image_vectors() (in module smlmlp) integrate_crop() (in module smlmlp) intensity_channels (smlmlp.Config property) inv_transform_locs() (in module smlmlp) irradiance_image (smlmlp.Config property)

L

lifetime_iflim_calibration (smlmlp.Config property) lifetime_method (smlmlp.Config property) loaded (smlmlp.Config property) Locs (class in smlmlp) locs (smlmlp.Config attribute) locs_individual_barycenter() (in module smlmlp)

locs_individual_fit() (in module smlmlp) locs_individual_gaussfit() (in module smlmlp) locs_individual_isogaussfit() (in module smlmlp) locs_individual_splinefit() (in module smlmlp) lost_channels() (in module smlmlp) lost_frames() (in module smlmlp)

M

mean_radius_nm (smlmlp.Config property) meanshift_frames_per_segment (smlmlp.Config property) meanshift_max_drift_nm (smlmlp.Config property) meanshift_max_iter (smlmlp.Config property) meanshift_outlier_fraction (smlmlp.Config property) meanshift_recompute (smlmlp.Config property) meanshift_tol_nm (smlmlp.Config property) median_window_fr (smlmlp.Config property) median_window_ms (smlmlp.Config property) metadata (smlmlp.Config property) metric_frc() (in module smlmlp) metric_nena() (in module smlmlp)

metric_overloc() (in module smlmlp) metric_photophysics() (in module smlmlp) metric_squirrel() (in module smlmlp) modloc_axial() (in module smlmlp) modloc_axial_angle_deg (smlmlp.Config property) modloc_channels_indices (smlmlp.Config property) modloc_demodulated() (in module smlmlp) modloc_dephases_rad (smlmlp.Config property) modloc_sequential() (in module smlmlp) modloc_sequential_frames (smlmlp.Config property) modloc_transverse() (in module smlmlp) modloc_transverse_angle_deg (smlmlp.Config property)

N

ncameras (smlmlp.Config property) nchannels (smlmlp.Config property) ndetections (smlmlp.Locs attribute) (smlmlp.Locs property)

ndyes (smlmlp.Config property) nframes (smlmlp.Config property)

O

on_time_kernel (smlmlp.Config property) on_time_ms (smlmlp.Config property) open() (smlmlp.Locs method) open_df() (in module smlmlp)

opening_radius_nm (smlmlp.Config property) optimizer (smlmlp.Config property) orient_polar2d() (in module smlmlp) orient_polar3d() (in module smlmlp)

P

pad (smlmlp.Config property) parallel (smlmlp.Config property)

phase_method (smlmlp.Config property) pixel_sr_nm (smlmlp.Config property) printer (smlmlp.Locs attribute)

R

registrate_ecc_affine() (in module smlmlp) registrate_locs_affine() (in module smlmlp) registrate_optimize_images() (in module smlmlp)

registrate_pcc_shift() (in module smlmlp) registrate_solve_redundant_affine() (in module smlmlp) registrate_solve_redundant_shift() (in module smlmlp) registrate_transform() (in module smlmlp)

S

save() (smlmlp.Config method) (smlmlp.Locs method) save_df() (in module smlmlp) signal_combination() (in module smlmlp) signal_spatial_filter() (in module smlmlp) signal_temporal_filter() (in module smlmlp)

simulation() (in module smlmlp) snr_thresh (smlmlp.Config property) spatial_subtract_factor (smlmlp.Config property) spectral_x_channels (smlmlp.Config property) spectral_y_channels (smlmlp.Config property) split() (smlmlp.Locs method)

T

temporal_kernel (smlmlp.Config property) temporal_kernel_shape (smlmlp.Config property) temporal_subtract_factor (smlmlp.Config property) temporal_subtract_kernel (smlmlp.Config property) tilt_method (smlmlp.Config property)

time (smlmlp.Locs property) times (smlmlp.Locs attribute) (smlmlp.Locs property) track_association_radius_nm (smlmlp.Config property) transform_locs() (in module smlmlp)

X

x_channels (smlmlp.Config property)

x_method (smlmlp.Config property) x_timeloc_calibration (smlmlp.Config property)

Y

y_channels (smlmlp.Config property)

y_method (smlmlp.Config property) y_timeloc_calibration (smlmlp.Config property)

Z

z_astig_calibration (smlmlp.Config property) z_biplane_calibration (smlmlp.Config property) z_channels (smlmlp.Config property) z_donald_calibration (smlmlp.Config property)

z_method (smlmlp.Config property) z_miet_calibration (smlmlp.Config property) z_qtirf_calibration (smlmlp.Config property) z_timeloc_calibration (smlmlp.Config property) zstack_speed (smlmlp.Config property)