nabu.stitching package¶
Submodules¶
- nabu.stitching.config module
str_to_shifts()SlurmConfigStitchingTypeStitchingConfigurationStitchingConfiguration.axis_0_pos_pxStitchingConfiguration.axis_1_pos_pxStitchingConfiguration.axis_2_pos_pxStitchingConfiguration.axis_0_pos_mmStitchingConfiguration.axis_1_pos_mmStitchingConfiguration.axis_2_pos_mmStitchingConfiguration.axis_0_paramsStitchingConfiguration.axis_1_paramsStitchingConfiguration.axis_2_paramsStitchingConfiguration.slurm_configStitchingConfiguration.flip_lrStitchingConfiguration.flip_udStitchingConfiguration.overwrite_resultsStitchingConfiguration.stitching_strategyStitchingConfiguration.stitching_kernels_extra_paramsStitchingConfiguration.slice_for_cross_correlationStitchingConfiguration.rescale_framesStitchingConfiguration.rescale_paramsStitchingConfiguration.stitching_typeStitchingConfiguration.get_description_dict()StitchingConfiguration.to_dict()
ZStitchingConfigurationPreProcessedZStitchingConfigurationPreProcessedZStitchingConfiguration.input_scansPreProcessedZStitchingConfiguration.output_file_pathPreProcessedZStitchingConfiguration.output_data_pathPreProcessedZStitchingConfiguration.output_nexus_versionPreProcessedZStitchingConfiguration.pixel_sizePreProcessedZStitchingConfiguration.stitching_typePreProcessedZStitchingConfiguration.get_output_object()PreProcessedZStitchingConfiguration.settle_inputs()PreProcessedZStitchingConfiguration.settle_input_scans()PreProcessedZStitchingConfiguration.slice_idx_from_str_to_int()PreProcessedZStitchingConfiguration.settle_slices()PreProcessedZStitchingConfiguration.to_dict()PreProcessedZStitchingConfiguration.get_description_dict()PreProcessedZStitchingConfiguration.from_dict()
PostProcessedZStitchingConfigurationPostProcessedZStitchingConfiguration.input_volumesPostProcessedZStitchingConfiguration.output_volumePostProcessedZStitchingConfiguration.voxel_sizePostProcessedZStitchingConfiguration.stitching_typePostProcessedZStitchingConfiguration.get_output_object()PostProcessedZStitchingConfiguration.settle_inputs()PostProcessedZStitchingConfiguration.settle_input_volumes()PostProcessedZStitchingConfiguration.slice_idx_from_str_to_int()PostProcessedZStitchingConfiguration.settle_slices()PostProcessedZStitchingConfiguration.from_dict()PostProcessedZStitchingConfiguration.to_dict()PostProcessedZStitchingConfiguration.get_description_dict()
identifiers_as_str_to_instances()dict_to_config_obj()get_default_stitching_config()
- nabu.stitching.frame_composition module
ZFrameCompositionZFrameComposition.local_start_yZFrameComposition.local_end_yZFrameComposition.global_start_yZFrameComposition.global_end_yZFrameComposition.browse()ZFrameComposition.compose()ZFrameComposition.compute_raw_frame_compositions()ZFrameComposition.compute_stitch_frame_composition()ZFrameComposition.pprint_z_stitching()
- nabu.stitching.overlap module
- nabu.stitching.slurm_utils module
- nabu.stitching.utils module
ShiftAlgorithmShiftAlgorithm.NABU_FFTShiftAlgorithm.SKIMAGEShiftAlgorithm.SHIFT_GRIDShiftAlgorithm.ITK_IMG_REG_V4ShiftAlgorithm.NONEShiftAlgorithm.CENTEREDShiftAlgorithm.GLOBALShiftAlgorithm.SLIDING_WINDOWShiftAlgorithm.GROWING_WINDOWShiftAlgorithm.SINO_COARSE_TO_FINEShiftAlgorithm.COMPOSITE_COARSE_TO_FINE
test_overlap_stitching_strategy()find_frame_relative_shifts()find_volumes_relative_shifts()find_projections_relative_shifts()find_shift_correlate()ScoreMethodcompute_score_contrast_std()compute_tv_score()compute_score()shift_grid_search()find_shift_with_itk()
- nabu.stitching.z_stitching module
z_stitching()ZStitcherZStitcher.param_is_auto()ZStitcher.frame_compositionZStitcher.get_final_axis_positions_in_px()ZStitcher.from_abs_pos_to_rel_pos()ZStitcher.from_rel_pos_to_abs_pos()ZStitcher.stitch()ZStitcher.settle_flips()ZStitcher.z_serieZStitcher.configurationZStitcher.progressZStitcher.get_overlap_areas()ZStitcher.rescale_frames()ZStitcher.stitch_frames()
PreProcessZStitcherPostProcessZStitcherstitch_vertically_raw_frames()StitchingPostProcAggregation