Index

_

__init__() (cohere_core.controller.phasing.Rec method)

A

adjust_dimensions() (in module cohere_core.utilities.utils) align_arrays_pixel() (in module cohere_core.utilities.dvc_utils)

align_arrays_subpixel() (in module cohere_core.utilities.dvc_utils) all_metrics() (in module cohere_core.utilities.dvc_utils) arr_property() (in module cohere_core.utilities.dvc_utils)

B

binning() (in module cohere_core.utilities.utils)

breed() (in module cohere_core.utilities.dvc_utils)

C

center_max() (in module cohere_core.utilities.utils) center_sync() (in module cohere_core.utilities.dvc_utils) check_get_conj_reflect() (in module cohere_core.utilities.dvc_utils) cohere_core.controller.phasing module cohere_core.data.standard_preprocess module cohere_core.utilities.config_verifier module cohere_core.utilities.dvc_utils module cohere_core.utilities.utils module cohere_ui.beamline_postprocess module cohere_ui.beamline_preprocess module

cohere_ui.cohere_full module cohere_ui.cohere_reconstruction module cohere_ui.copy_setup module cohere_ui.create_aps34idc_experiment module cohere_ui.simple_phasing module cohere_ui.standard_preprocess module conj_reflect() (in module cohere_core.utilities.dvc_utils) correlation_err() (in module cohere_core.utilities.dvc_utils) create_rec() (in module cohere_core.controller.phasing) crop_center() (in module cohere_core.utilities.utils) cross_correlation() (in module cohere_core.utilities.dvc_utils)

D

dftregistration() (in module cohere_core.utilities.dvc_utils)

dftups() (in module cohere_core.utilities.dvc_utils)

F

fast_shift() (in module cohere_core.utilities.dvc_utils)

G

gauss_conv_fft() (in module cohere_core.utilities.dvc_utils) get_ccamax_cc() (in module cohere_core.utilities.dvc_utils) get_central_object_extent() (in module cohere_core.utilities.utils) get_coherence() (cohere_core.controller.phasing.Rec method) get_good_dim() (in module cohere_core.utilities.utils) get_image() (cohere_core.controller.phasing.Rec method)

get_lib() (in module cohere_core.utilities.utils) get_logger() (in module cohere_core.utilities.utils) get_metric() (cohere_core.controller.phasing.Rec method) (in module cohere_core.utilities.dvc_utils) get_norm() (in module cohere_core.utilities.dvc_utils) get_oversample_ratio() (in module cohere_core.utilities.utils) get_support() (cohere_core.controller.phasing.Rec method)

H

histogram2d() (in module cohere_core.utilities.dvc_utils)

I

init_dev() (cohere_core.controller.phasing.Rec method)

init_iter_loop() (cohere_core.controller.phasing.Rec method) iterate() (cohere_core.controller.phasing.Rec method)

J

join() (in module cohere_core.utilities.utils)

L

lucy_deconvolution() (in module cohere_core.utilities.dvc_utils)

M

module cohere_core.controller.phasing cohere_core.data.standard_preprocess cohere_core.utilities.config_verifier cohere_core.utilities.dvc_utils cohere_core.utilities.utils cohere_ui.beamline_postprocess cohere_ui.beamline_preprocess cohere_ui.cohere_full cohere_ui.cohere_reconstruction cohere_ui.copy_setup cohere_ui.create_aps34idc_experiment cohere_ui.simple_phasing cohere_ui.standard_preprocess

N

normalize() (in module cohere_core.utilities.utils)

P

pad_around() (in module cohere_core.utilities.dvc_utils) pad_center() (in module cohere_core.utilities.utils)

pad_to_cube() (in module cohere_core.utilities.dvc_utils) prep() (in module cohere_core.data.standard_preprocess)

R

read_config() (in module cohere_core.utilities.utils) read_tif() (in module cohere_core.utilities.utils) Rec (class in cohere_core.controller.phasing)

register_3d_reconstruction() (in module cohere_core.utilities.dvc_utils) remove_ramp() (in module cohere_core.utilities.dvc_utils) resample() (in module cohere_core.utilities.dvc_utils) (in module cohere_core.utilities.utils)

S

save_metrics() (in module cohere_core.utilities.utils) save_res() (cohere_core.controller.phasing.Rec method) save_tif() (in module cohere_core.utilities.utils) select_central_object() (in module cohere_core.utilities.utils)

set_lib_from_pkg() (in module cohere_core.controller.phasing) (in module cohere_core.utilities.dvc_utils) shift_phase() (in module cohere_core.utilities.dvc_utils) shrink_wrap() (in module cohere_core.utilities.dvc_utils) sub_pixel_shift() (in module cohere_core.utilities.dvc_utils)

T

threshold_by_edge() (in module cohere_core.utilities.utils)

U

use_numpy() (in module cohere_core.utilities.dvc_utils)

V

verify() (in module cohere_core.utilities.config_verifier)

W

write_config() (in module cohere_core.utilities.utils)

write_plot_errors() (in module cohere_core.utilities.utils)

Z

zero_phase() (in module cohere_core.utilities.dvc_utils)

zero_phase_cc() (in module cohere_core.utilities.dvc_utils)