Index A | B | C | E | F | G | I | L | M | P | Q | R | S | T | W A apply_mask_partition() (in module scip.masking) B bag_from_directory() (in module scip.loading.multiframe_tiff) bbox_features() (in module scip.features.bbox) bounding_box_partition() (in module scip.masking) C check() (in module scip.utils.util) ClientClusterContext (class in scip.utils.util) compute_features() (in module scip.features) compute_filters() (in module scip.masking) configure_logging() (in module scip.utils.util) copy_without() (in module scip.utils.util) correct() (in module scip.illumination_correction.jones_2006) create_masks_on_bag() (in module scip.masking.circle) (in module scip.masking.li) (in module scip.masking.otsu) (in module scip.masking.sobel) (in module scip.masking.spot) (in module scip.masking.watershed) E export() (in module scip.export.anndata) (in module scip.export.parquet) export_labeled_mask() (in module scip.segmentation) extract_features() (in module scip.features) F feature_partition() (in module scip.filter.threshold) features_partition() (in module scip.features) filter() (in module scip.masking.filters.normaltest) (in module scip.masking.filters.std) (in module scip.masking.filters.value_range) G get_distributed_minmax() (in module scip.normalization.quantile_normalization) get_group_keys() (in module scip.loading.czi) (in module scip.loading.tiff) (in module scip.loading.zarr) get_images_bag() (in module scip.loading.util) get_loader_meta() (in module scip.loading.czi) (in module scip.loading.tiff) (in module scip.loading.zarr) get_mask() (in module scip.masking.circle) (in module scip.masking.sobel) (in module scip.masking.watershed) I intensity_features() (in module scip.features.intensity) item() (in module scip.filter.threshold) L load_image() (in module scip.loading.multiframe_tiff) load_image_partition() (in module scip.loading.zarr) load_meta() (in module scip.loading) load_pixels() (in module scip.loading) (in module scip.loading.czi) (in module scip.loading.tiff) (in module scip.loading.zarr) load_yaml_config() (in module scip.utils.util) M main() (in module scip.main) make_output_dir() (in module scip.utils.util) mask() (in module scip.masking) mask_post_process() (in module scip.masking) module scip scip.export scip.export.anndata scip.export.parquet scip.features scip.features.bbox scip.features.intensity scip.features.raw_intensity scip.features.shape scip.features.texture scip.filter scip.filter.threshold scip.illumination_correction scip.illumination_correction.jones_2006 scip.loading scip.loading.czi scip.loading.multiframe_tiff scip.loading.tiff scip.loading.util scip.loading.zarr scip.main scip.masking scip.masking.circle scip.masking.filters scip.masking.filters.normaltest scip.masking.filters.std scip.masking.filters.value_range scip.masking.li scip.masking.otsu scip.masking.sobel scip.masking.spot scip.masking.watershed scip.normalization scip.normalization.quantile_normalization scip.projection scip.projection.op scip.segmentation scip.segmentation.watershed_dapi scip.utils scip.utils.util P predicate() (in module scip.filter.threshold) prerun() (in module scip.utils.util) project_block() (in module scip.projection.op) project_block_partition() (in module scip.projection) Q quantile_normalization() (in module scip.normalization.quantile_normalization) R raw_intensity_features() (in module scip.features.raw_intensity) reload_image_partition() (in module scip.loading.zarr) remove_regions_touching_border_partition() (in module scip.masking) S scip module scip.export module scip.export.anndata module scip.export.parquet module scip.features module scip.features.bbox module scip.features.intensity module scip.features.raw_intensity module scip.features.shape module scip.features.texture module scip.filter module scip.filter.threshold module scip.illumination_correction module scip.illumination_correction.jones_2006 module scip.loading module scip.loading.czi module scip.loading.multiframe_tiff module scip.loading.tiff module scip.loading.util module scip.loading.zarr module scip.main module scip.masking module scip.masking.circle module scip.masking.filters module scip.masking.filters.normaltest module scip.masking.filters.std module scip.masking.filters.value_range module scip.masking.li module scip.masking.otsu module scip.masking.sobel module scip.masking.spot module scip.masking.watershed module scip.normalization module scip.normalization.quantile_normalization module scip.projection module scip.projection.op module scip.segmentation module scip.segmentation.watershed_dapi module scip.utils module scip.utils.util module segment() (in module scip.segmentation) segment_block() (in module scip.segmentation.watershed_dapi) shape_features() (in module scip.features.shape) T texture_features() (in module scip.features.texture) to_events() (in module scip.segmentation) W wait() (scip.utils.util.ClientClusterContext method)