Index A | B | C | D | E | F | G | H | I | J | L | M | N | O | P | R | S | T | U | W | X | Y A adaptive_batching (slide2vec.PreprocessingConfig attribute) aggregate_tiles() (slide2vec.Model method) annotation (slide2vec.DenseRegionArtifact attribute) (slide2vec.EmbeddedSlide attribute) (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.SlideRegions attribute) (slide2vec.TileEmbeddingArtifact attribute) attention_blocks (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) attention_include_registers (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) B backend (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) batch_size (slide2vec.ExecutionOptions attribute) C compatible artifact concise() (slide2vec.EncoderProviderDiagnostic method) coordinates (slide2vec.SlideRegions attribute) crop_box (slide2vec.DenseEncodeGeometry attribute) D declared spacing dense_identity_differences() (slide2vec.Model method) DenseEncodeGeometry (class in slide2vec) DenseEncodeKit (class in slide2vec) DenseImageArtifact (class in slide2vec) DenseImageOptions (class in slide2vec) DenseOptions (class in slide2vec) DenseRegionArtifact (class in slide2vec) device (slide2vec.Model property) (slide2vec.TorchTileEncoder property) E effective spacing embed_images() (slide2vec.Model method) embed_images_dense() (slide2vec.Model method) embed_patient() (slide2vec.Model method) embed_patients() (slide2vec.Model method) embed_regions_dense() (slide2vec.Model method) embed_slide() (slide2vec.Model method) embed_slides() (slide2vec.Model method) embed_tiles() (slide2vec.Model method) EmbeddedPatient (class in slide2vec) EmbeddedSlide (class in slide2vec) encode() (slide2vec.DenseEncodeKit method) encode_dim (slide2vec.TimmTileEncoder property) (slide2vec.TorchTileEncoder property) encode_tiles() (slide2vec.TileEncoder method) (slide2vec.TorchTileEncoder method) encode_tiles_attention() (slide2vec.TileEncoder method) (slide2vec.TimmTileEncoder method) encode_tiles_dense() (slide2vec.TileEncoder method) (slide2vec.TimmTileEncoder method) encode_tiles_dense_prenorm() (slide2vec.TileEncoder method) (slide2vec.TimmTileEncoder method) encoded_size (slide2vec.DenseEncodeGeometry attribute) encoder_input_size_px (slide2vec.EmbeddedSlide attribute) EncoderProviderDiagnostic (class in slide2vec) exception_type (slide2vec.EncoderProviderDiagnostic attribute) ExecutionOptions (class in slide2vec) F feature_dim (slide2vec.DenseImageArtifact attribute) (slide2vec.DenseRegionArtifact attribute) (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.ImageEmbeddingArtifact attribute) (slide2vec.Model property) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.TileEmbeddingArtifact attribute) feature_kind (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) filter (slide2vec.PreprocessingConfig attribute) format (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.ImageEmbeddingArtifact attribute) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.TileEmbeddingArtifact attribute) from_preset() (slide2vec.Model class method) G geometry (slide2vec.DenseEncodeKit property) get_normalization_transform() (slide2vec.TileEncoder method) (slide2vec.TimmTileEncoder method) (slide2vec.TorchTileEncoder method) get_transform() (slide2vec.TileEncoder method) (slide2vec.TimmTileEncoder method) (slide2vec.TorchTileEncoder method) gpu_decode (slide2vec.PreprocessingConfig attribute) grid_shape (slide2vec.DenseEncodeGeometry attribute) (slide2vec.DenseImageArtifact attribute) (slide2vec.DenseRegionArtifact attribute) H hierarchical_artifacts (slide2vec.RunResult attribute) HierarchicalEmbeddingArtifact (class in slide2vec) I image_pad_value (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) image_path (slide2vec.EmbeddedSlide attribute) (slide2vec.ImageSpec attribute) (slide2vec.SlideRegions attribute) ImageEmbeddingArtifact (class in slide2vec) ImageSpec (class in slide2vec) J jpeg_backend (slide2vec.PreprocessingConfig attribute) L latent_path (slide2vec.SlideEmbeddingArtifact attribute) latents (slide2vec.EmbeddedSlide attribute) list_encoder_provider_diagnostics() (in module slide2vec) M mask_path (slide2vec.EmbeddedSlide attribute) mask_preview_path (slide2vec.EmbeddedSlide attribute) masks (slide2vec.PreprocessingConfig attribute) message (slide2vec.EncoderProviderDiagnostic attribute) metadata (slide2vec.DenseImageArtifact property) (slide2vec.DenseRegionArtifact property) (slide2vec.HierarchicalEmbeddingArtifact property) (slide2vec.ImageEmbeddingArtifact property) (slide2vec.SlideEmbeddingArtifact property) (slide2vec.TileEmbeddingArtifact property) metadata_path (slide2vec.DenseImageArtifact attribute) (slide2vec.DenseRegionArtifact attribute) (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.ImageEmbeddingArtifact attribute) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.TileEmbeddingArtifact attribute) Model (class in slide2vec) N num_cucim_workers (slide2vec.PreprocessingConfig attribute) num_gpus (slide2vec.ExecutionOptions attribute) num_preprocessing_workers (slide2vec.ExecutionOptions attribute) num_regions (slide2vec.HierarchicalEmbeddingArtifact attribute) num_tiles (slide2vec.EmbeddedSlide attribute) (slide2vec.TileEmbeddingArtifact attribute) num_workers_per_gpu (slide2vec.ExecutionOptions attribute) O on_image_mismatch (slide2vec.ExecutionOptions attribute) on_the_fly (slide2vec.PreprocessingConfig attribute) output_dir (slide2vec.ExecutionOptions attribute) output_dtype (slide2vec.ExecutionOptions attribute) output_format (slide2vec.ExecutionOptions attribute) overlap (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) P pad (slide2vec.DenseEncodeGeometry attribute) pad_mode (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) patch_size (slide2vec.DenseEncodeGeometry attribute) (slide2vec.TileEncoder property) (slide2vec.TimmTileEncoder property) path (slide2vec.DenseImageArtifact attribute) (slide2vec.DenseRegionArtifact attribute) (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.ImageEmbeddingArtifact attribute) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.TileEmbeddingArtifact attribute) patient_artifacts (slide2vec.RunResult attribute) patient_embedding (slide2vec.EmbeddedPatient attribute) patient_id (slide2vec.EmbeddedPatient attribute) Pipeline (class in slide2vec) pooled_identity_differences() (slide2vec.Model method) precision (slide2vec.ExecutionOptions attribute) prefetch_factor (slide2vec.ExecutionOptions attribute) prepare_dense_encoder() (slide2vec.Model method) PreprocessingConfig (class in slide2vec) preprocessor() (slide2vec.DenseEncodeKit method) preview (slide2vec.PreprocessingConfig attribute) process_list_path (slide2vec.RunResult attribute) provider (slide2vec.EncoderProviderDiagnostic attribute) provider_key (slide2vec.EncoderProviderDiagnostic attribute) R raster image read_coordinates_from (slide2vec.PreprocessingConfig attribute) read_tiles_from (slide2vec.PreprocessingConfig attribute) region_tile_multiple (slide2vec.PreprocessingConfig attribute) register_encoder() (in module slide2vec) requested_region_size_px (slide2vec.PreprocessingConfig attribute) resolved_num_gpus() (slide2vec.ExecutionOptions method) resolved_num_preprocessing_workers() (slide2vec.ExecutionOptions method) resume (slide2vec.PreprocessingConfig attribute) run() (slide2vec.Pipeline method) run_with_coordinates() (slide2vec.Pipeline method) RunResult (class in slide2vec) S sample_id (slide2vec.DenseImageArtifact attribute) (slide2vec.DenseRegionArtifact attribute) (slide2vec.EmbeddedSlide attribute) (slide2vec.HierarchicalEmbeddingArtifact attribute) (slide2vec.ImageEmbeddingArtifact attribute) (slide2vec.ImageSpec attribute) (slide2vec.SlideEmbeddingArtifact attribute) (slide2vec.SlideRegions attribute) (slide2vec.TileEmbeddingArtifact attribute) save_latents (slide2vec.ExecutionOptions attribute) save_slide_embeddings (slide2vec.ExecutionOptions attribute) save_tile_embeddings (slide2vec.ExecutionOptions attribute) save_tiles (slide2vec.PreprocessingConfig attribute) segmentation (slide2vec.PreprocessingConfig attribute) slide_artifacts (slide2vec.RunResult attribute) slide_embedding (slide2vec.EmbeddedSlide attribute) slide_embeddings (slide2vec.EmbeddedPatient attribute) SlideEmbeddingArtifact (class in slide2vec) SlideRegions (class in slide2vec) source spacing source-spacing declaration spacing-readable image spacing_at_level_0 (slide2vec.ImageSpec attribute) (slide2vec.SlideRegions attribute) spacing_um (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) T target size target_size (slide2vec.DenseEncodeGeometry attribute) (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) tile_artifacts (slide2vec.RunResult attribute) tile_embeddings (slide2vec.EmbeddedSlide attribute) tile_size_lv0 (slide2vec.EmbeddedSlide attribute) TileEmbeddingArtifact (class in slide2vec) TileEncoder (class in slide2vec) tiles_per_region (slide2vec.HierarchicalEmbeddingArtifact attribute) tiling (slide2vec.PreprocessingConfig attribute) tiling_preview_path (slide2vec.EmbeddedSlide attribute) TimmTileEncoder (class in slide2vec) to() (slide2vec.TorchTileEncoder method) tolerance (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) TorchTileEncoder (class in slide2vec) transform (slide2vec.EmbeddedSlide attribute) U use_supertiles (slide2vec.PreprocessingConfig attribute) W window_size (slide2vec.DenseImageOptions attribute) (slide2vec.DenseOptions attribute) X x (slide2vec.DenseRegionArtifact attribute) (slide2vec.EmbeddedSlide attribute) Y y (slide2vec.DenseRegionArtifact attribute) (slide2vec.EmbeddedSlide attribute)