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<!DOCTYPE html>
<html class="writer-html5" lang="en" data-content_root="./">
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<title>Index — CDTools 0.2.0 documentation</title>
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<h1 id="index">Index</h1>
<div class="genindex-jumpbox">
<a href="#_"><strong>_</strong></a>
| <a href="#A"><strong>A</strong></a>
| <a href="#B"><strong>B</strong></a>
| <a href="#C"><strong>C</strong></a>
| <a href="#D"><strong>D</strong></a>
| <a href="#E"><strong>E</strong></a>
| <a href="#F"><strong>F</strong></a>
| <a href="#G"><strong>G</strong></a>
| <a href="#H"><strong>H</strong></a>
| <a href="#I"><strong>I</strong></a>
| <a href="#L"><strong>L</strong></a>
| <a href="#M"><strong>M</strong></a>
| <a href="#N"><strong>N</strong></a>
| <a href="#O"><strong>O</strong></a>
| <a href="#P"><strong>P</strong></a>
| <a href="#Q"><strong>Q</strong></a>
| <a href="#R"><strong>R</strong></a>
| <a href="#S"><strong>S</strong></a>
| <a href="#T"><strong>T</strong></a>
| <a href="#U"><strong>U</strong></a>
</div>
<h2 id="_">_</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="datasets.html#cdtools.datasets.CDataset.__init__">__init__() (cdtools.datasets.CDataset method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.__init__">(cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="models.html#cdtools.models.Bragg2DPtycho.__init__">(cdtools.models.Bragg2DPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.__init__">(cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.FancyPtycho.__init__">(cdtools.models.FancyPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.Multislice2DPtycho.__init__">(cdtools.models.Multislice2DPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.MultislicePtycho.__init__">(cdtools.models.MultislicePtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.RPI.__init__">(cdtools.models.RPI method)</a>
</li>
<li><a href="models.html#cdtools.models.SimplePtycho.__init__">(cdtools.models.SimplePtycho method)</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="datasets.html#cdtools.datasets.CDataset._load">_load() (cdtools.datasets.CDataset method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset._load">(cdtools.datasets.Ptycho2DDataset method)</a>
</li>
</ul></li>
</ul></td>
</tr></table>
<h2 id="A">A</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.CDIModel.AD_optimize">AD_optimize() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.Adam_optimize">Adam_optimize() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_dark">add_dark() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_data">add_data() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_detector">add_detector() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_entry_info">add_entry_info() (in module cdtools.tools.data)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/data.html#cdtools.tools.data.add_mask">add_mask() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_ptycho_translations">add_ptycho_translations() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_sample_info">add_sample_info() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_shot_to_shot_info">add_shot_to_shot_info() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.add_source">add_source() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/losses.html#cdtools.tools.losses.amplitude_mse">amplitude_mse() (in module cdtools.tools.losses)</a>
</li>
</ul></td>
</tr></table>
<h2 id="B">B</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.Bragg2DPtycho">Bragg2DPtycho (class in cdtools.models)</a>
</li>
</ul></td>
</tr></table>
<h2 id="C">C</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_consistency_prtf">calc_consistency_prtf() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_deconvolved_cross_correlation">calc_deconvolved_cross_correlation() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_fidelity">calc_fidelity() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_frc">calc_frc() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_generalized_rms_error">calc_generalized_rms_error() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_mode_power_fractions">calc_mode_power_fractions() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/initializers.html#cdtools.tools.initializers.calc_object_setup">calc_object_setup() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_rms_error">calc_rms_error() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_spectral_info">calc_spectral_info() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.calc_vn_entropy">calc_vn_entropy() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.CDataset">CDataset (class in cdtools.datasets)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel">CDIModel (class in cdtools.models)</a>
</li>
<li>
cdtools.datasets
<ul>
<li><a href="datasets.html#module-cdtools.datasets">module</a>
</li>
</ul></li>
<li>
cdtools.models
<ul>
<li><a href="models.html#module-cdtools.models">module</a>
</li>
</ul></li>
<li>
cdtools.tools.analysis
<ul>
<li><a href="tools/analysis.html#module-cdtools.tools.analysis">module</a>
</li>
</ul></li>
<li>
cdtools.tools.data
<ul>
<li><a href="tools/data.html#module-cdtools.tools.data">module</a>
</li>
</ul></li>
<li>
cdtools.tools.image_processing
<ul>
<li><a href="tools/image_processing.html#module-cdtools.tools.image_processing">module</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li>
cdtools.tools.initializers
<ul>
<li><a href="tools/initializers.html#module-cdtools.tools.initializers">module</a>
</li>
</ul></li>
<li>
cdtools.tools.interactions
<ul>
<li><a href="tools/interactions.html#module-cdtools.tools.interactions">module</a>
</li>
</ul></li>
<li>
cdtools.tools.losses
<ul>
<li><a href="tools/losses.html#module-cdtools.tools.losses">module</a>
</li>
</ul></li>
<li>
cdtools.tools.measurements
<ul>
<li><a href="tools/measurements.html#module-cdtools.tools.measurements">module</a>
</li>
</ul></li>
<li>
cdtools.tools.plotting
<ul>
<li><a href="tools/plotting.html#module-cdtools.tools.plotting">module</a>
</li>
</ul></li>
<li>
cdtools.tools.propagators
<ul>
<li><a href="tools/propagators.html#module-cdtools.tools.propagators">module</a>
</li>
</ul></li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.center">center() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="models.html#cdtools.models.FancyPtycho.center_probes">center_probes() (cdtools.models.FancyPtycho method)</a>
<ul>
<li><a href="models.html#cdtools.models.MultislicePtycho.center_probes">(cdtools.models.MultislicePtycho method)</a>
</li>
</ul></li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.centroid">centroid() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.centroid_sq">centroid_sq() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.colorize">colorize() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.compare">compare() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.convolve_1d">convolve_1d() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.create_cxi">create_cxi() (in module cdtools.tools.data)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.crop_translations">crop_translations() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
</ul></td>
</tr></table>
<h2 id="D">D</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.downsample">downsample() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
</ul></td>
</tr></table>
<h2 id="E">E</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/initializers.html#cdtools.tools.initializers.exit_wave_geometry">exit_wave_geometry() (in module cdtools.tools.initializers)</a>
</li>
</ul></td>
</tr></table>
<h2 id="F">F</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.FancyPtycho">FancyPtycho (class in cdtools.models)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.far_field">far_field() (in module cdtools.tools.propagators)</a>
</li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.find_pixel_shift">find_pixel_shift() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.find_shift">find_shift() (in module cdtools.tools.image_processing)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.find_subpixel_shift">find_subpixel_shift() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.forward">forward() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.CDataset.from_cxi">from_cxi() (cdtools.datasets.CDataset class method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.from_cxi">(cdtools.datasets.Ptycho2DDataset class method)</a>
</li>
</ul></li>
</ul></td>
</tr></table>
<h2 id="G">G</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/initializers.html#cdtools.tools.initializers.gaussian">gaussian() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="tools/initializers.html#cdtools.tools.initializers.gaussian_probe">gaussian_probe() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.generate_angular_spectrum_propagator">generate_angular_spectrum_propagator() (in module cdtools.tools.propagators)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.generate_generalized_angular_spectrum_propagator">generate_generalized_angular_spectrum_propagator() (in module cdtools.tools.propagators)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.generate_high_NA_k_intensity_map">generate_high_NA_k_intensity_map() (in module cdtools.tools.propagators)</a>
</li>
<li><a href="tools/initializers.html#cdtools.tools.initializers.generate_subdominant_modes">generate_subdominant_modes() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.CDataset.get_as">get_as() (cdtools.datasets.CDataset method)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_dark">get_dark() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_data">get_data() (in module cdtools.tools.data)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.CDIModel.get_detector_geometry">get_detector_geometry() (cdtools.models.CDIModel method)</a>
<ul>
<li><a href="tools/data.html#cdtools.tools.data.get_detector_geometry">(in module cdtools.tools.data)</a>
</li>
</ul></li>
<li><a href="tools/data.html#cdtools.tools.data.get_entry_info">get_entry_info() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_mask">get_mask() (in module cdtools.tools.data)</a>
</li>
<li><a href="models.html#cdtools.models.RPI.get_obj_shape_and_n_modes">get_obj_shape_and_n_modes() (cdtools.models.RPI method)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_ptycho_translations">get_ptycho_translations() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_sample_info">get_sample_info() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_shot_to_shot_info">get_shot_to_shot_info() (in module cdtools.tools.data)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.get_units_factor">get_units_factor() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/data.html#cdtools.tools.data.get_wavelength">get_wavelength() (in module cdtools.tools.data)</a>
</li>
</ul></td>
</tr></table>
<h2 id="H">H</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/data.html#cdtools.tools.data.h5_to_nested_dict">h5_to_nested_dict() (in module cdtools.tools.data)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.hann_window">hann_window() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.high_NA_far_field">high_NA_far_field() (in module cdtools.tools.propagators)</a>
</li>
</ul></td>
</tr></table>
<h2 id="I">I</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/measurements.html#cdtools.tools.measurements.incoherent_sum">incoherent_sum() (in module cdtools.tools.measurements)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.CDataset.inspect">inspect() (cdtools.datasets.CDataset method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.inspect">(cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.inspect">(cdtools.models.CDIModel method)</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/measurements.html#cdtools.tools.measurements.intensity">intensity() (in module cdtools.tools.measurements)</a>
</li>
<li><a href="tools/losses.html#cdtools.tools.losses.intensity_mse">intensity_mse() (in module cdtools.tools.losses)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.inverse_far_field">inverse_far_field() (in module cdtools.tools.propagators)</a>
</li>
<li><a href="tools/propagators.html#cdtools.tools.propagators.inverse_near_field">inverse_near_field() (in module cdtools.tools.propagators)</a>
</li>
</ul></td>
</tr></table>
<h2 id="L">L</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.CDIModel.LBFGS_optimize">LBFGS_optimize() (cdtools.models.CDIModel method)</a>
</li>
</ul></td>
</tr></table>
<h2 id="M">M</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li>
module
<ul>
<li><a href="datasets.html#module-cdtools.datasets">cdtools.datasets</a>
</li>
<li><a href="models.html#module-cdtools.models">cdtools.models</a>
</li>
<li><a href="tools/analysis.html#module-cdtools.tools.analysis">cdtools.tools.analysis</a>
</li>
<li><a href="tools/data.html#module-cdtools.tools.data">cdtools.tools.data</a>
</li>
<li><a href="tools/image_processing.html#module-cdtools.tools.image_processing">cdtools.tools.image_processing</a>
</li>
<li><a href="tools/initializers.html#module-cdtools.tools.initializers">cdtools.tools.initializers</a>
</li>
<li><a href="tools/interactions.html#module-cdtools.tools.interactions">cdtools.tools.interactions</a>
</li>
<li><a href="tools/losses.html#module-cdtools.tools.losses">cdtools.tools.losses</a>
</li>
<li><a href="tools/measurements.html#module-cdtools.tools.measurements">cdtools.tools.measurements</a>
</li>
<li><a href="tools/plotting.html#module-cdtools.tools.plotting">cdtools.tools.plotting</a>
</li>
<li><a href="tools/propagators.html#module-cdtools.tools.propagators">cdtools.tools.propagators</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.Multislice2DPtycho">Multislice2DPtycho (class in cdtools.models)</a>
</li>
<li><a href="models.html#cdtools.models.MultislicePtycho">MultislicePtycho (class in cdtools.models)</a>
</li>
</ul></td>
</tr></table>
<h2 id="N">N</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/propagators.html#cdtools.tools.propagators.near_field">near_field() (in module cdtools.tools.propagators)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/data.html#cdtools.tools.data.nested_dict_to_h5">nested_dict_to_h5() (in module cdtools.tools.data)</a>
</li>
</ul></td>
</tr></table>
<h2 id="O">O</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/analysis.html#cdtools.tools.analysis.orthogonalize_probes">orthogonalize_probes() (in module cdtools.tools.analysis)</a>
</li>
</ul></td>
</tr></table>
<h2 id="P">P</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.pad">pad() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.pixel_to_translations">pixel_to_translations() (in module cdtools.tools.interactions)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_amplitude">plot_amplitude() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_colorized">plot_colorized() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_imag">plot_imag() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.plot_mean_pattern">plot_mean_pattern() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_nanomap">plot_nanomap() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_nanomap_with_images">plot_nanomap_with_images() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_phase">plot_phase() (in module cdtools.tools.plotting)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_real">plot_real() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/plotting.html#cdtools.tools.plotting.plot_translations">plot_translations() (in module cdtools.tools.plotting)</a>
</li>
<li><a href="tools/losses.html#cdtools.tools.losses.poisson_nll">poisson_nll() (in module cdtools.tools.losses)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.product_svd">product_svd() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.project_translations_to_sample">project_translations_to_sample() (in module cdtools.tools.interactions)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset">Ptycho2DDataset (class in cdtools.datasets)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.ptycho_2D_linear">ptycho_2D_linear() (in module cdtools.tools.interactions)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.ptycho_2D_round">ptycho_2D_round() (in module cdtools.tools.interactions)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.ptycho_2D_sinc">ptycho_2D_sinc() (in module cdtools.tools.interactions)</a>
</li>
</ul></td>
</tr></table>
<h2 id="Q">Q</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/measurements.html#cdtools.tools.measurements.quadratic_background">quadratic_background() (in module cdtools.tools.measurements)</a>
</li>
</ul></td>
</tr></table>
<h2 id="R">R</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.RPI.random_init">random_init() (cdtools.models.RPI method)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.remove_translations_mask">remove_translations_mask() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.CDIModel.report">report() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.RPI">RPI (class in cdtools.models)</a>
</li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.RPI_interaction">RPI_interaction() (in module cdtools.tools.interactions)</a>
</li>
</ul></td>
</tr></table>
<h2 id="S">S</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.CDIModel.save_figures">save_figures() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.save_on_exception">save_on_exception() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.save_on_exit">save_on_exit() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.Bragg2DPtycho.save_results">save_results() (cdtools.models.Bragg2DPtycho method)</a>
<ul>
<li><a href="models.html#cdtools.models.CDIModel.save_results">(cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.FancyPtycho.save_results">(cdtools.models.FancyPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.Multislice2DPtycho.save_results">(cdtools.models.Multislice2DPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.MultislicePtycho.save_results">(cdtools.models.MultislicePtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.RPI.save_results">(cdtools.models.RPI method)</a>
</li>
<li><a href="models.html#cdtools.models.SimplePtycho.save_results">(cdtools.models.SimplePtycho method)</a>
</li>
</ul></li>
<li><a href="models.html#cdtools.models.CDIModel.save_to_h5">save_to_h5() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.SGD_optimize">SGD_optimize() (cdtools.models.CDIModel method)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="tools/initializers.html#cdtools.tools.initializers.SHARP_style_probe">SHARP_style_probe() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="models.html#cdtools.models.SimplePtycho">SimplePtycho (class in cdtools.models)</a>
</li>
<li><a href="tools/image_processing.html#cdtools.tools.image_processing.sinc_subpixel_shift">sinc_subpixel_shift() (in module cdtools.tools.image_processing)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.skip_computation">skip_computation() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="models.html#cdtools.models.RPI.spectral_init">spectral_init() (cdtools.models.RPI method)</a>
</li>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.split">split() (cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.standardize">standardize() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.standardize_reconstruction_pair">standardize_reconstruction_pair() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.standardize_reconstruction_set">standardize_reconstruction_set() (in module cdtools.tools.analysis)</a>
</li>
<li><a href="tools/initializers.html#cdtools.tools.initializers.STEM_style_probe">STEM_style_probe() (in module cdtools.tools.initializers)</a>
</li>
<li><a href="models.html#cdtools.models.CDIModel.store_detector_geometry">store_detector_geometry() (cdtools.models.CDIModel method)</a>
</li>
<li><a href="tools/analysis.html#cdtools.tools.analysis.synthesize_reconstructions">synthesize_reconstructions() (in module cdtools.tools.analysis)</a>
</li>
</ul></td>
</tr></table>
<h2 id="T">T</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.FancyPtycho.tidy_probes">tidy_probes() (cdtools.models.FancyPtycho method)</a>
<ul>
<li><a href="models.html#cdtools.models.Multislice2DPtycho.tidy_probes">(cdtools.models.Multislice2DPtycho method)</a>
</li>
<li><a href="models.html#cdtools.models.MultislicePtycho.tidy_probes">(cdtools.models.MultislicePtycho method)</a>
</li>
</ul></li>
<li><a href="datasets.html#cdtools.datasets.CDataset.to">to() (cdtools.datasets.CDataset method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.to">(cdtools.datasets.Ptycho2DDataset method)</a>
</li>
<li><a href="models.html#cdtools.models.Multislice2DPtycho.to">(cdtools.models.Multislice2DPtycho method)</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="datasets.html#cdtools.datasets.CDataset.to_cxi">to_cxi() (cdtools.datasets.CDataset method)</a>
<ul>
<li><a href="datasets.html#cdtools.datasets.Ptycho2DDataset.to_cxi">(cdtools.datasets.Ptycho2DDataset method)</a>
</li>
</ul></li>
<li><a href="tools/interactions.html#cdtools.tools.interactions.translations_to_pixel">translations_to_pixel() (in module cdtools.tools.interactions)</a>
</li>
</ul></td>
</tr></table>
<h2 id="U">U</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="models.html#cdtools.models.RPI.uniform_init">uniform_init() (cdtools.models.RPI method)</a>
</li>
</ul></td>
</tr></table>
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