LICENSE
MANIFEST.in
README.md
THIRD_PARTY_NOTICES.md
pyproject.toml
setup.py
ci/smoke.py
csrc/combine.hpp
csrc/drift.cpp
csrc/drift.hpp
csrc/filters.hpp
csrc/fit.cpp
csrc/global.hpp
csrc/group.cpp
csrc/group.hpp
csrc/linalg.hpp
csrc/lm.hpp
csrc/maxima.hpp
csrc/models.hpp
csrc/parallel.hpp
csrc/render.cpp
csrc/render.hpp
src/smappy/__init__.py
src/smappy/api.py
src/smappy/batch.py
src/smappy/blocks.py
src/smappy/camera.py
src/smappy/camera_db.py
src/smappy/chain.py
src/smappy/columns.py
src/smappy/config.py
src/smappy/detect.py
src/smappy/diagnostics.py
src/smappy/drift.py
src/smappy/dualfit.py
src/smappy/figures.py
src/smappy/filter.py
src/smappy/fit_rois.py
src/smappy/frametags.py
src/smappy/frc.py
src/smappy/gpu.py
src/smappy/group.py
src/smappy/handoff.py
src/smappy/images.py
src/smappy/layer_state.py
src/smappy/live.py
src/smappy/locs.py
src/smappy/lut.py
src/smappy/mathparse.py
src/smappy/metadata.py
src/smappy/npc.py
src/smappy/params.py
src/smappy/pipeline.py
src/smappy/psf.py
src/smappy/rawframes.py
src/smappy/rcc.py
src/smappy/region_results.py
src/smappy/region_runs.py
src/smappy/region_table.py
src/smappy/regions.py
src/smappy/render.py
src/smappy/session.py
src/smappy/spatial.py
src/smappy/undo.py
src/smappy/view3d.py
src/smappy/workspace.py
src/smappy/_comet/LICENSE.txt
src/smappy/_comet/__init__.py
src/smappy/_comet/_version.py
src/smappy/_comet/core/__init__.py
src/smappy/_comet/core/_dialogs.py
src/smappy/_comet/core/backends.py
src/smappy/_comet/core/cpu_wrapper.py
src/smappy/_comet/core/drift_optimizer.py
src/smappy/_comet/core/interpolation.py
src/smappy/_comet/core/io_utils.py
src/smappy/_comet/core/pair_indices.py
src/smappy/_comet/core/qc_utils.py
src/smappy/_comet/core/segmenter.py
src/smappy/_comet/core/cuda_wrapper/__init__.py
src/smappy/_comet/core/cuda_wrapper/cuda_wrapper.py
src/smappy/_comet/core/cuda_wrapper/cuda_wrapper_qc.py
src/smappy/calibrate/__init__.py
src/smappy/calibrate/core.py
src/smappy/calibrate/dual.py
src/smappy/calibrate/input.py
src/smappy/calibrate/plots.py
src/smappy/calibrate/qt_gui.py
src/smappy/calibrate/stack_view.py
src/smappy/calibrate/transform.py
src/smappy/calibrate/validation.py
src/smappy/cli/__init__.py
src/smappy/cli/batch.py
src/smappy/cli/calibrate.py
src/smappy/cli/camera_args.py
src/smappy/cli/drift.py
src/smappy/cli/fit.py
src/smappy/cli/gui.py
src/smappy/data/cameras.json
src/smappy/data/icons/smappy.svg
src/smappy/data/icons/smappy_128.png
src/smappy/data/icons/smappy_16.png
src/smappy/data/icons/smappy_24.png
src/smappy/data/icons/smappy_256.png
src/smappy/data/icons/smappy_32.png
src/smappy/data/icons/smappy_48.png
src/smappy/data/icons/smappy_512.png
src/smappy/data/icons/smappy_64.png
src/smappy/data/microscopes/example.yaml
src/smappy/data/structures/demo.yaml
src/smappy/data/structures/filaments.yaml
src/smappy/data/structures/npc.yaml
src/smappy/data/structures/pie.yaml
src/smappy/docs/__init__.py
src/smappy/docs/__main__.py
src/smappy/docs/markup.py
src/smappy/docs/panels/3D view.md
src/smappy/docs/panels/Batch window.md
src/smappy/docs/panels/Bead calibration.md
src/smappy/docs/panels/Camera editor.md
src/smappy/docs/panels/Glossary.md
src/smappy/docs/panels/ROI manager.md
src/smappy/docs/panels/Regions tab.md
src/smappy/docs/panels/Render tab.md
src/smappy/gui/__init__.py
src/smappy/gui/app.py
src/smappy/gui/batch_window.py
src/smappy/gui/camera_editor.py
src/smappy/gui/camera_view.py
src/smappy/gui/canvas.py
src/smappy/gui/chain_panel.py
src/smappy/gui/chooser.py
src/smappy/gui/collector.py
src/smappy/gui/dialogs.py
src/smappy/gui/drops.py
src/smappy/gui/errors.py
src/smappy/gui/figures.py
src/smappy/gui/folders.py
src/smappy/gui/help_window.py
src/smappy/gui/icon.py
src/smappy/gui/identity.py
src/smappy/gui/live_session.py
src/smappy/gui/merging.py
src/smappy/gui/params.py
src/smappy/gui/plugin_panel.py
src/smappy/gui/plugin_tab.py
src/smappy/gui/preferences.py
src/smappy/gui/region_steps.py
src/smappy/gui/render_tab.py
src/smappy/gui/render_view.py
src/smappy/gui/roi_site.py
src/smappy/gui/roi_tab.py
src/smappy/gui/roi_window.py
src/smappy/gui/view3d.py
src/smappy/gui/widgets.py
src/smappy/io/__init__.py
src/smappy/io/calibration.py
src/smappy/io/formats.py
src/smappy/io/hdf5.py
src/smappy/io/ndtiff.py
src/smappy/io/queue_source.py
src/smappy/io/singles.py
src/smappy/io/tiff.py
src/smappy/io/watch.py
src/smappy/plugins/__init__.py
src/smappy/plugins/assign_colors.py
src/smappy/plugins/bead_calibration.py
src/smappy/plugins/chain_layers.py
src/smappy/plugins/clusters.py
src/smappy/plugins/discovery.py
src/smappy/plugins/drift_comet.py
src/smappy/plugins/drift_rcc.py
src/smappy/plugins/drift_result.py
src/smappy/plugins/file.py
src/smappy/plugins/fit.py
src/smappy/plugins/ground_truth.py
src/smappy/plugins/history.py
src/smappy/plugins/image_tags.py
src/smappy/plugins/line_profile.py
src/smappy/plugins/math_parser.py
src/smappy/plugins/npc.py
src/smappy/plugins/npc_analysis.chain.yaml
src/smappy/plugins/precision.py
src/smappy/plugins/region_column.py
src/smappy/plugins/registration.py
src/smappy/plugins/remove_locs.py
src/smappy/plugins/roi.py
src/smappy/plugins/statistics.py
src/smappy/plugins/uipsf.py
src/smappy/plugins/docs/Analysis/Drift/COMET.md
src/smappy/plugins/docs/Analysis/Drift/RCC.md
src/smappy/plugins/docs/Analysis/Dual-colour/Assign colours.md
src/smappy/plugins/docs/Analysis/Measure/Ground Truth.md
src/smappy/plugins/docs/Analysis/Measure/Line Profile.md
src/smappy/plugins/docs/Analysis/Measure/Localization Precision.md
src/smappy/plugins/docs/Analysis/Measure/Localization Statistics.md
src/smappy/plugins/docs/Analysis/Measure/NPC Corners.md
src/smappy/plugins/docs/Analysis/Process/History.md
src/smappy/plugins/docs/Analysis/Process/Image Tags.md
src/smappy/plugins/docs/Analysis/Process/Math Parser.md
src/smappy/plugins/docs/Analysis/Process/Remove Localizations.md
src/smappy/plugins/docs/Analysis/Regions/Column to ROIs.md
src/smappy/plugins/docs/Analysis/Regions/Regions to column.md
src/smappy/plugins/docs/Analysis/Regions/Find/DBSCAN.md
src/smappy/plugins/docs/Analysis/Regions/Find/Density Peaks.md
src/smappy/plugins/docs/Analysis/Regions/Find/NPC.md
src/smappy/plugins/docs/Analysis/Regions/Summarize/Histograms.md
src/smappy/plugins/docs/Analysis/Regions/Summarize/NPC labelling efficiency.md
src/smappy/plugins/docs/Analysis/Regions/Workflow/NPC Analysis.md
src/smappy/plugins/docs/Analysis/Register/Calibrate transform.md
src/smappy/plugins/docs/Chain/Layers.md
src/smappy/plugins/docs/File/Export/Image.md
src/smappy/plugins/docs/File/Load/Auto.md
src/smappy/plugins/docs/File/Save/smappy HDF5.md
src/smappy/plugins/docs/File/Simulate/Blinking Structure.md
src/smappy/plugins/docs/Localize/Bead calibration.md
src/smappy/plugins/docs/Localize/Gaussian 2D 2C.md
src/smappy/plugins/docs/Localize/Gaussian 2D.md
src/smappy/plugins/docs/Localize/Spline 3D 2C.md
src/smappy/plugins/docs/Localize/Spline 3D.md
src/smappy/plugins/docs/Localize/uiPSF calibration.md
src/smappy/roi_manager/__init__.py
src/smappy/roi_manager/core.py
src/smappy/roi_manager/pipeline.py
src/smappy/simulate/__init__.py
src/smappy/simulate/camera.py
src/smappy/simulate/kinetics.py
src/smappy/simulate/localizations.py
src/smappy/simulate/settings.py
src/smappy/simulate/source.py
src/smappy/simulate/structure.py
src/smappy/tutorial/__init__.py
src/smappy/tutorial/__main__.py
src/smappy/tutorial/director.py
src/smappy/tutorial/player.py
src/smappy/tutorial/voice.py
src/smappy/tutorial/topics/__init__.py
src/smappy/tutorial/topics/batch.py
src/smappy/tutorial/topics/common.py
src/smappy/tutorial/topics/drift_correction.py
src/smappy/tutorial/topics/fitting.py
src/smappy/tutorial/topics/fitting_3d.py
src/smappy/tutorial/topics/layout.py
src/smappy/tutorial/topics/measuring.py
src/smappy/tutorial/topics/plugins.py
src/smappy/tutorial/topics/quickstart.py
src/smappy/tutorial/topics/rendering.py
src/smappy/tutorial/topics/simulation.py
src/smappy/tutorial/topics/two_colour.py
src/smappy/tutorial/topics/two_colour_3d.py
src/smappy/uipsf/__init__.py
src/smappy/uipsf/convert.py
src/smappy/uipsf/microscopes.py
src/smappy/uipsf/plots.py
src/smappy/uipsf/prepare.py
src/smappy/uipsf/runner.py
src/smappy/uipsf/worker.py
src/smappy_smlm.egg-info/PKG-INFO
src/smappy_smlm.egg-info/SOURCES.txt
src/smappy_smlm.egg-info/dependency_links.txt
src/smappy_smlm.egg-info/entry_points.txt
src/smappy_smlm.egg-info/requires.txt
src/smappy_smlm.egg-info/top_level.txt
tests/conftest.py
tests/test_api.py
tests/test_append.py
tests/test_assign_colors.py
tests/test_batch.py
tests/test_batch_foundations.py
tests/test_bead_calibration.py
tests/test_blocks.py
tests/test_calibrate_qt.py
tests/test_calibration.py
tests/test_camera_db.py
tests/test_camera_editor.py
tests/test_camera_frames.py
tests/test_camera_view.py
tests/test_chain.py
tests/test_chain_gui.py
tests/test_changes_locs.py
tests/test_channel_transform.py
tests/test_clusters.py
tests/test_collector.py
tests/test_context.py
tests/test_control_width.py
tests/test_copy.py
tests/test_detect_roi.py
tests/test_diagnostics.py
tests/test_discovery.py
tests/test_drift.py
tests/test_drop_files.py
tests/test_dual_calibration.py
tests/test_dual_fit.py
tests/test_dual_gauss_fit.py
tests/test_err_columns.py
tests/test_errors.py
tests/test_extensions.py
tests/test_figure_window.py
tests/test_file_plugins.py
tests/test_filter.py
tests/test_fit_finish.py
tests/test_fit_plugin.py
tests/test_fitter.py
tests/test_formats.py
tests/test_frametags.py
tests/test_frc.py
tests/test_global_fit.py
tests/test_global_gauss.py
tests/test_gpu.py
tests/test_ground_truth.py
tests/test_group.py
tests/test_gui_display_counts.py
tests/test_gui_filter_histogram.py
tests/test_gui_image_layers.py
tests/test_gui_layers.py
tests/test_gui_live_render_tab.py
tests/test_gui_load.py
tests/test_gui_preview.py
tests/test_gui_render_axes.py
tests/test_gui_view3d.py
tests/test_gui_view_overlays.py
tests/test_gui_view_roi.py
tests/test_handoff.py
tests/test_history.py
tests/test_icon.py
tests/test_identity.py
tests/test_keep_filters.py
tests/test_last_folder.py
tests/test_layer_state.py
tests/test_line_profile.py
tests/test_live.py
tests/test_live_panel.py
tests/test_live_session.py
tests/test_live_table.py
tests/test_locs_io.py
tests/test_many_regions.py
tests/test_math_parser.py
tests/test_metadata.py
tests/test_ndtiff.py
tests/test_npc.py
tests/test_one_table.py
tests/test_panel_docs.py
tests/test_plugin_docs.py
tests/test_plugin_grouping.py
tests/test_plugins.py
tests/test_precision.py
tests/test_preview.py
tests/test_queue_source.py
tests/test_raw_frames.py
tests/test_rcc.py
tests/test_readout.py
tests/test_region_results.py
tests/test_region_runs.py
tests/test_region_table.py
tests/test_regions.py
tests/test_remove_locs.py
tests/test_render.py
tests/test_render_axes.py
tests/test_render_snapshot.py
tests/test_result_notices.py
tests/test_roi_evaluation_plots.py
tests/test_roi_manager.py
tests/test_roi_pipeline.py
tests/test_roi_session.py
tests/test_roi_staleness.py
tests/test_save_image.py
tests/test_saved_results.py
tests/test_simulate.py
tests/test_singles.py
tests/test_spatial.py
tests/test_spline_model.py
tests/test_statistics.py
tests/test_stop_button.py
tests/test_tutorial.py
tests/test_uipsf.py
tests/test_undo.py
tests/test_unmirror.py
tests/test_unsaved.py
tests/test_view3d.py
tests/test_watch.py
tests/test_workspace.py