Index _ | A | B | C | D | F | G | H | I | L | M | P | R | S | T _ __init__() (sc_reconstruction.adapters.FrozenMLPDecoderAdapter method) (sc_reconstruction.dataloaders.DaskPCADataModule method) (sc_reconstruction.dataloaders.DatasetEpochCallback method) (sc_reconstruction.dataloaders.IterDaskDataModule method) (sc_reconstruction.decoders.BaseReconstructionDecoder method) (sc_reconstruction.decoders.ReconMLPDecoder method) (sc_reconstruction.decoders.ReconTransformerDecoder method) (sc_reconstruction.models.BaseReconstructionModel method) (sc_reconstruction.models.ReconAE method) (sc_reconstruction.models.ReconKNN method) (sc_reconstruction.models.ReconMLSCVI method) (sc_reconstruction.models.ReconNLSCVI method) (sc_reconstruction.models.ReconPCA method) (sc_reconstruction.models.ReconPretrainedscConcept method) (sc_reconstruction.models.ReconPretrainedscGPT method) (sc_reconstruction.models.ReconPretrainedscimilarity method) (sc_reconstruction.models.ReconPretrainedStateModel method) (sc_reconstruction.models.ReconSCVI method) A aggregate_rank_percentile() (in module sc_reconstruction.metrics) B BaseReconstructionDecoder (class in sc_reconstruction.decoders) BaseReconstructionModel (class in sc_reconstruction.models) C compute_all_metrics() (in module sc_reconstruction.metrics) compute_biological_metrics() (in module sc_reconstruction.metrics) compute_perturbational_metrics() (in module sc_reconstruction.metrics) compute_statistical_metrics() (in module sc_reconstruction.metrics) create_model_from_cfg() (in module sc_reconstruction.utils) D DaskPCADataModule (class in sc_reconstruction.dataloaders) DatasetEpochCallback (class in sc_reconstruction.dataloaders) F filter_genes() (in module sc_reconstruction.utils) find_model_paths() (in module sc_reconstruction.utils) FrozenMLPDecoderAdapter (class in sc_reconstruction.adapters) funky_heatmap() (in module sc_reconstruction.metrics) G get_model_class_from_name() (in module sc_reconstruction.utils) get_zarr_attr() (in module sc_reconstruction.utils) H HIGHER_IS_BETTER (in module sc_reconstruction.metrics) I inst_model_from_checkpoint() (in module sc_reconstruction.utils) IterDaskDataModule (class in sc_reconstruction.dataloaders) L load_cell_cycle_genes() (in module sc_reconstruction.metrics) load_cytokine_dict_from_csv() (in module sc_reconstruction.metrics) load_progeny() (in module sc_reconstruction.metrics) M metric_cellcycle() (in module sc_reconstruction.metrics) metric_coexpression() (in module sc_reconstruction.metrics) metric_cytokine() (in module sc_reconstruction.metrics) metric_deg() (in module sc_reconstruction.metrics) metric_energy_distance() (in module sc_reconstruction.metrics) metric_knn_purity() (in module sc_reconstruction.metrics) metric_mse() (in module sc_reconstruction.metrics) metric_pathway() (in module sc_reconstruction.metrics) metric_r2() (in module sc_reconstruction.metrics) module sc_reconstruction P parse_model_params_from_filename() (in module sc_reconstruction.utils) R read_csv_pandas_flexible() (in module sc_reconstruction.utils) ReconAE (class in sc_reconstruction.models) ReconKNN (class in sc_reconstruction.models) ReconMLPDecoder (class in sc_reconstruction.decoders) ReconMLSCVI (class in sc_reconstruction.models) ReconNLSCVI (class in sc_reconstruction.models) ReconPCA (class in sc_reconstruction.models) ReconPretrainedscConcept (class in sc_reconstruction.models) ReconPretrainedscGPT (class in sc_reconstruction.models) ReconPretrainedscimilarity (class in sc_reconstruction.models) ReconPretrainedStateModel (class in sc_reconstruction.models) ReconSCVI (class in sc_reconstruction.models) ReconTransformerDecoder (class in sc_reconstruction.decoders) S sample_list() (in module sc_reconstruction.utils) sc_reconstruction module split_zarr_dataloader() (in module sc_reconstruction.utils) T transform_to_csr() (in module sc_reconstruction.utils)