nabu.stitching package¶
Subpackages¶
- nabu.stitching.stitcher package
- Subpackages
- Submodules
- Module contents
- nabu.stitching.utils package
Submodules¶
- nabu.stitching.alignment module
- nabu.stitching.config module
str_to_shifts()NormalizationBySampleSlurmConfigStitchingConfigurationStitchingConfiguration.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.normalization_by_sampleStitchingConfiguration.duplicate_dataStitchingConfiguration.stitching_typeStitchingConfiguration.get_description_dict()StitchingConfiguration.to_dict()
SingleAxisConfigMetaClassSingleAxisStitchingConfigurationSingleAxisStitchingConfiguration.slicesSingleAxisStitchingConfiguration.alignment_axis_2SingleAxisStitchingConfiguration.pad_modeSingleAxisStitchingConfiguration.axisSingleAxisStitchingConfiguration.settle_inputs()SingleAxisStitchingConfiguration.settle_slices()SingleAxisStitchingConfiguration.get_output_object()SingleAxisStitchingConfiguration.to_dict()
PreProcessedSingleAxisStitchingConfigurationPreProcessedSingleAxisStitchingConfiguration.input_scansPreProcessedSingleAxisStitchingConfiguration.output_file_pathPreProcessedSingleAxisStitchingConfiguration.output_data_pathPreProcessedSingleAxisStitchingConfiguration.output_nexus_versionPreProcessedSingleAxisStitchingConfiguration.pixel_sizePreProcessedSingleAxisStitchingConfiguration.stitching_typePreProcessedSingleAxisStitchingConfiguration.get_output_object()PreProcessedSingleAxisStitchingConfiguration.settle_inputs()PreProcessedSingleAxisStitchingConfiguration.settle_input_scans()PreProcessedSingleAxisStitchingConfiguration.slice_idx_from_str_to_int()PreProcessedSingleAxisStitchingConfiguration.settle_slices()PreProcessedSingleAxisStitchingConfiguration.to_dict()PreProcessedSingleAxisStitchingConfiguration.get_description_dict()PreProcessedSingleAxisStitchingConfiguration.from_dict()
PostProcessedSingleAxisStitchingConfigurationPostProcessedSingleAxisStitchingConfiguration.input_volumesPostProcessedSingleAxisStitchingConfiguration.output_volumePostProcessedSingleAxisStitchingConfiguration.voxel_sizePostProcessedSingleAxisStitchingConfiguration.alignment_axis_1PostProcessedSingleAxisStitchingConfiguration.stitching_typePostProcessedSingleAxisStitchingConfiguration.get_output_object()PostProcessedSingleAxisStitchingConfiguration.settle_inputs()PostProcessedSingleAxisStitchingConfiguration.settle_input_volumes()PostProcessedSingleAxisStitchingConfiguration.slice_idx_from_str_to_int()PostProcessedSingleAxisStitchingConfiguration.settle_slices()PostProcessedSingleAxisStitchingConfiguration.from_dict()PostProcessedSingleAxisStitchingConfiguration.to_dict()PostProcessedSingleAxisStitchingConfiguration.get_description_dict()
identifiers_as_str_to_instances()dict_to_config_obj()get_default_stitching_config()PreProcessedYStitchingConfigurationPreProcessedZStitchingConfigurationPostProcessedZStitchingConfiguration
- nabu.stitching.definitions module
- nabu.stitching.frame_composition module
FrameCompositionFrameComposition.composed_axisFrameComposition.local_startFrameComposition.local_endFrameComposition.global_startFrameComposition.global_endFrameComposition.browse()FrameComposition.compose()FrameComposition.compute_raw_frame_compositions()FrameComposition.compute_stitch_frame_composition()FrameComposition.pprint_composition()
- nabu.stitching.overlap module
OverlapStitchingStrategyOverlapKernelBaseImageStichOverlapKernelImageStichOverlapKernel.DEFAULT_HIGH_FREQUENCY_THRESHOLDImageStichOverlapKernel.stitched_axisImageStichOverlapKernel.unstitched_axisImageStichOverlapKernel.overlap_sizeImageStichOverlapKernel.img_2ImageStichOverlapKernel.weights_img_1ImageStichOverlapKernel.weights_img_2ImageStichOverlapKernel.stitching_strategyImageStichOverlapKernel.compute_weights()ImageStichOverlapKernel.stitch()
compute_image_minimum_divergence()compute_image_higher_signal()check_overlaps()
- nabu.stitching.sample_normalization module
- nabu.stitching.single_axis_stitching module
- nabu.stitching.slurm_utils module
- nabu.stitching.stitcher_2D module
- nabu.stitching.y_stitching module
- nabu.stitching.z_stitching module