Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | P | R | S | T | U _ __init__() (domid.algos.zoo_algos.AlgoBuilderChainNodeGetter method) (domid.compos.cnn_AE.ConvolutionalDecoder method) (domid.compos.cnn_AE.ConvolutionalEncoder method) (domid.compos.cnn_VAE.ConvolutionalDecoder method) (domid.compos.cnn_VAE.ConvolutionalEncoder method) (domid.compos.DEC_clustering_layer.DECClusteringLayer method) (domid.compos.GNN.GNN method) (domid.compos.GNN_layer.GNNLayer method) (domid.compos.linear_AE.LinearDecoderAE method) (domid.compos.linear_AE.LinearEncoderAE method) (domid.compos.linear_VAE.LinearDecoder method) (domid.compos.linear_VAE.LinearEncoder method) (domid.compos.nn_net.Net_MNIST method) (domid.compos.predict_basic.Prediction method) (domid.compos.VAE_blocks.UnFlatten method) (domid.dsets.a_dset_mnist_color_rgb_solo.ADsetMNISTColorRGBSolo method) (domid.dsets.dset_her2.DsetHER2 method) (domid.dsets.dset_mnist.DsetMNIST method) (domid.dsets.dset_unittest.DsetUnitTest method) (domid.dsets.dset_usps.DsetUSPS method) (domid.dsets.dset_wsi.DsetWSI method) (domid.dsets.make_graph.GraphConstructor method) (domid.dsets.make_graph_wsi.GraphConstructorWSI method) (domid.models.a_model_cluster.AModelCluster method) (domid.tasks.zoo_tasks.TaskChainNodeGetter method) (domid.trainers.pretraining_GMM.Pretraining method) (domid.trainers.pretraining_KMeans.Pretraining method) (domid.trainers.pretraining_sdcn.PretrainingSDCN method) (domid.trainers.zoo_trainer.TrainerChainNodeGetter method) (domid.utils.perf_cluster.PerfCluster method) (domid.utils.perf_similarity.PerfCorrelationHER2 method) (domid.utils.storing.Storing method) A ADsetMNISTColorRGBSolo (class in domid.dsets.a_dset_mnist_color_rgb_solo) ae_weights() (in module domid.tests.test_model_trainer) AlgoBuilderChainNodeGetter (class in domid.algos.zoo_algos) AModelCluster (class in domid.models.a_model_cluster) B before_tr() (domid.trainers.trainer_ae.TrainerAE method) (domid.trainers.trainer_cluster.TrainerCluster method) (domid.trainers.trainer_sdcn.TrainerSDCN method) C cal_acc() (domid.utils.perf_cluster.PerfCluster class method) (domid.utils.perf_similarity.PerfCorrelationHER2 class method) cal_loss() (domid.models.a_model_cluster.AModelCluster method) cal_perf_metric() (domid.models.a_model_cluster.AModelCluster method) calc_corr() (domid.tasks.task_her2.NodeTaskHER2 method) cnn_decoding_block() (in module domid.compos.VAE_blocks) cnn_encoding_block() (in module domid.compos.VAE_blocks) connection_calc() (domid.dsets.make_graph.GraphConstructor method) (domid.dsets.make_graph_wsi.GraphConstructorWSI method) construct_graph() (domid.dsets.make_graph.GraphConstructor method) (domid.dsets.make_graph_wsi.GraphConstructorWSI method) conv_op() (domid.compos.nn_net.Net_MNIST method) ConvolutionalDecoder (class in domid.compos.cnn_AE) (class in domid.compos.cnn_VAE) ConvolutionalEncoder (class in domid.compos.cnn_AE) (class in domid.compos.cnn_VAE) create_perf_obj() (domid.models.a_model_cluster.AModelCluster method) create_the_dataset() (domid.dsets.dset_unittest.DsetUnitTest method) csv_dump() (domid.utils.storing.Storing method) D DECClusteringLayer (class in domid.compos.DEC_clustering_layer) dim_y (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 property) distance_calc() (domid.dsets.make_graph.GraphConstructor method) distance_calc_wsi() (domid.dsets.make_graph_wsi.GraphConstructorWSI method) domid module domid.algos module domid.algos.builder_ae module domid.algos.builder_dec module domid.algos.builder_m2yd module domid.algos.builder_sdcn module domid.algos.builder_vade module domid.algos.zoo_algos module domid.arg_parser module domid.compos module domid.compos.cnn_AE module domid.compos.cnn_VAE module domid.compos.DEC_clustering_layer module domid.compos.GNN module domid.compos.GNN_layer module domid.compos.linear_AE module domid.compos.linear_VAE module domid.compos.nn_net module domid.compos.predict_basic module domid.compos.tensorboard_fun module domid.compos.VAE_blocks module domid.dsets module domid.dsets.a_dset_mnist_color_rgb_solo module domid.dsets.dset_her2 module domid.dsets.dset_mnist module domid.dsets.dset_mnist_color_solo_default module domid.dsets.dset_unittest module domid.dsets.dset_usps module domid.dsets.dset_wsi module domid.dsets.generate_dataset_dataframe_her2 module domid.dsets.make_graph module domid.dsets.make_graph_wsi module domid.mk_exp module domid.models module domid.models.a_model_cluster module domid.models.model_ae module domid.models.model_dec module domid.models.model_m2yd module domid.models.model_sdcn module domid.models.model_vade module domid.tasks module domid.tasks.b_task_cluster module domid.tasks.task_her2 module domid.tasks.task_mnist module domid.tasks.task_mnist_color module domid.tasks.task_unittest module domid.tasks.task_usps module domid.tasks.task_wsi module domid.tasks.zoo_tasks module domid.tests module domid.tests.test_domid module domid.tests.test_graph module domid.tests.test_losses module domid.tests.test_mnist_dataset module domid.tests.test_model_builder module domid.tests.test_model_trainer module domid.tests.utils module domid.trainers module domid.trainers.pretraining_GMM module domid.trainers.pretraining_KMeans module domid.trainers.pretraining_sdcn module domid.trainers.trainer_ae module domid.trainers.trainer_cluster module domid.trainers.trainer_sdcn module domid.trainers.zoo_trainer module domid.utils module domid.utils.mean_std module domid.utils.perf_cluster module domid.utils.perf_similarity module domid.utils.storing module DsetHER2 (class in domid.dsets.dset_her2) DsetMNIST (class in domid.dsets.dset_mnist) DsetMNISTColorSoloDefault (class in domid.dsets.dset_mnist_color_solo_default) DsetUnitTest (class in domid.dsets.dset_unittest) DsetUSPS (class in domid.dsets.dset_usps) DsetWSI (class in domid.dsets.dset_wsi) E epoch_tr_acc() (domid.compos.predict_basic.Prediction method) epoch_tr_correlation() (domid.compos.predict_basic.Prediction method) epoch_val_acc() (domid.compos.predict_basic.Prediction method) epoch_val_correlation() (domid.compos.predict_basic.Prediction method) experiment_train() (in module domid.tests.utils) extend() (domid.models.a_model_cluster.AModelCluster method) F forward() (domid.compos.cnn_AE.ConvolutionalDecoder method) (domid.compos.cnn_AE.ConvolutionalEncoder method) (domid.compos.cnn_VAE.ConvolutionalDecoder method) (domid.compos.cnn_VAE.ConvolutionalEncoder method) (domid.compos.DEC_clustering_layer.DECClusteringLayer method) (domid.compos.GNN.GNN method) (domid.compos.GNN_layer.GNNLayer method) (domid.compos.linear_AE.LinearDecoderAE method) (domid.compos.linear_AE.LinearEncoderAE method) (domid.compos.linear_VAE.LinearDecoder method) (domid.compos.linear_VAE.LinearEncoder method) (domid.compos.nn_net.Net_MNIST method) (domid.compos.VAE_blocks.UnFlatten method) G generate_dataframe() (domid.dsets.a_dset_mnist_color_rgb_solo.ADsetMNISTColorRGBSolo method) get_background_color() (domid.dsets.a_dset_mnist_color_rgb_solo.ADsetMNISTColorRGBSolo method) (domid.dsets.dset_mnist_color_solo_default.DsetMNISTColorSoloDefault method) get_dset_by_domain() (domid.tasks.task_her2.NodeTaskHER2 method) (domid.tasks.task_mnist.NodeTaskMNIST method) (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 method) (domid.tasks.task_unittest.NodeTaskUnitTest method) (domid.tasks.task_usps.NodeTaskUSPS method) (domid.tasks.task_wsi.NodeTaskWSI method) get_features_labels() (domid.dsets.make_graph.GraphConstructor method) get_foreground_color() (domid.dsets.a_dset_mnist_color_rgb_solo.ADsetMNISTColorRGBSolo method) (domid.dsets.dset_mnist_color_solo_default.DsetMNISTColorSoloDefault method) get_jpg_folders() (in module domid.dsets.generate_dataset_dataframe_her2) get_list_domains() (domid.tasks.task_her2.NodeTaskHER2 method) (domid.tasks.task_mnist.NodeTaskMNIST method) (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 method) (domid.tasks.task_unittest.NodeTaskUnitTest method) (domid.tasks.task_usps.NodeTaskUSPS method) (domid.tasks.task_wsi.NodeTaskWSI method) get_log_sigma2() (domid.compos.cnn_AE.ConvolutionalEncoder method) (domid.compos.cnn_VAE.ConvolutionalEncoder method) (domid.compos.linear_AE.LinearEncoderAE method) (domid.compos.linear_VAE.LinearEncoder method) get_node_na() (in module domid.algos.builder_ae) (in module domid.algos.builder_dec) (in module domid.algos.builder_m2yd) (in module domid.algos.builder_sdcn) (in module domid.algos.builder_vade) get_num_colors() (domid.dsets.a_dset_mnist_color_rgb_solo.ADsetMNISTColorRGBSolo method) (domid.dsets.dset_mnist_color_solo_default.DsetMNISTColorSoloDefault method) get_original_indicies() (domid.dsets.dset_usps.DsetUSPS method) get_output_shape() (in module domid.compos.VAE_blocks) get_z() (domid.compos.cnn_AE.ConvolutionalEncoder method) (domid.compos.cnn_VAE.ConvolutionalEncoder method) (domid.compos.linear_AE.LinearEncoderAE method) (domid.compos.linear_VAE.LinearEncoder method) GMM_fit() (domid.trainers.pretraining_GMM.Pretraining method) GNN (class in domid.compos.GNN) GNNLayer (class in domid.compos.GNN_layer) graph_constructor() (in module domid.tests.test_graph) GraphConstructor (class in domid.dsets.make_graph) GraphConstructorWSI (class in domid.dsets.make_graph_wsi) H hungarian_algorithm() (domid.utils.perf_cluster.PerfCluster class method) I infer_d_v() (domid.models.a_model_cluster.AModelCluster method) init_business() (domid.algos.builder_ae.NodeAlgoBuilderAE method) (domid.algos.builder_dec.NodeAlgoBuilderDEC method) (domid.algos.builder_m2yd.NodeAlgoBuilderM2YD method) (domid.algos.builder_sdcn.NodeAlgoBuilderSDCN method) (domid.algos.builder_vade.NodeAlgoBuilderVaDE method) (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 method) (domid.trainers.trainer_ae.TrainerAE method) (domid.trainers.trainer_cluster.TrainerCluster method) (domid.trainers.trainer_sdcn.TrainerSDCN method) isize (domid.tasks.task_her2.NodeTaskHER2 property) (domid.tasks.task_mnist.NodeTaskMNIST property) (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 property) (domid.tasks.task_unittest.NodeTaskUnitTest property) (domid.tasks.task_usps.NodeTaskUSPS property) (domid.tasks.task_wsi.NodeTaskWSI property) K kmeans_cluster_assignement() (domid.trainers.pretraining_sdcn.PretrainingSDCN method) L linear_block() (in module domid.compos.VAE_blocks) LinearDecoder (class in domid.compos.linear_VAE) LinearDecoderAE (class in domid.compos.linear_AE) LinearEncoder (class in domid.compos.linear_VAE) LinearEncoderAE (class in domid.compos.linear_AE) list_str_y (domid.tasks.task_her2.NodeTaskHER2 property) (domid.tasks.task_mnist.NodeTaskMNIST property) (domid.tasks.task_mnist_color.NodeTaskMNISTColor10 property) (domid.tasks.task_unittest.NodeTaskUnitTest property) (domid.tasks.task_usps.NodeTaskUSPS property) (domid.tasks.task_wsi.NodeTaskWSI property) M mean_scores_per_experiment() (in module domid.dsets.generate_dataset_dataframe_her2) mk_adj_mat() (domid.dsets.make_graph.GraphConstructor method) mk_ae() (in module domid.models.model_ae) mk_dec() (in module domid.models.model_dec) mk_exp() (in module domid.mk_exp) mk_m2yd() (in module domid.models.model_m2yd) mk_parser_main() (in module domid.arg_parser) mk_prediction() (domid.compos.predict_basic.Prediction method) mk_sdcn() (in module domid.models.model_sdcn) mk_vade() (in module domid.models.model_vade) model_compiler() (in module domid.tests.test_model_builder) model_fit() (domid.trainers.pretraining_KMeans.Pretraining method) (domid.trainers.pretraining_sdcn.PretrainingSDCN method) module domid domid.algos domid.algos.builder_ae domid.algos.builder_dec domid.algos.builder_m2yd domid.algos.builder_sdcn domid.algos.builder_vade domid.algos.zoo_algos domid.arg_parser domid.compos domid.compos.cnn_AE domid.compos.cnn_VAE domid.compos.DEC_clustering_layer domid.compos.GNN domid.compos.GNN_layer domid.compos.linear_AE domid.compos.linear_VAE domid.compos.nn_net domid.compos.predict_basic domid.compos.tensorboard_fun domid.compos.VAE_blocks domid.dsets domid.dsets.a_dset_mnist_color_rgb_solo domid.dsets.dset_her2 domid.dsets.dset_mnist domid.dsets.dset_mnist_color_solo_default domid.dsets.dset_unittest domid.dsets.dset_usps domid.dsets.dset_wsi domid.dsets.generate_dataset_dataframe_her2 domid.dsets.make_graph domid.dsets.make_graph_wsi domid.mk_exp domid.models domid.models.a_model_cluster domid.models.model_ae domid.models.model_dec domid.models.model_m2yd domid.models.model_sdcn domid.models.model_vade domid.tasks domid.tasks.b_task_cluster domid.tasks.task_her2 domid.tasks.task_mnist domid.tasks.task_mnist_color domid.tasks.task_unittest domid.tasks.task_usps domid.tasks.task_wsi domid.tasks.zoo_tasks domid.tests domid.tests.test_domid domid.tests.test_graph domid.tests.test_losses domid.tests.test_mnist_dataset domid.tests.test_model_builder domid.tests.test_model_trainer domid.tests.utils domid.trainers domid.trainers.pretraining_GMM domid.trainers.pretraining_KMeans domid.trainers.pretraining_sdcn domid.trainers.trainer_ae domid.trainers.trainer_cluster domid.trainers.trainer_sdcn domid.trainers.zoo_trainer domid.utils domid.utils.mean_std domid.utils.perf_cluster domid.utils.perf_similarity domid.utils.storing N Net_MNIST (class in domid.compos.nn_net) node_compiler() (in module domid.tests.test_mnist_dataset) NodeAlgoBuilderAE (class in domid.algos.builder_ae) NodeAlgoBuilderDEC (class in domid.algos.builder_dec) NodeAlgoBuilderM2YD (class in domid.algos.builder_m2yd) NodeAlgoBuilderSDCN (class in domid.algos.builder_sdcn) NodeAlgoBuilderVaDE (class in domid.algos.builder_vade) NodeTaskDictCluster (class in domid.tasks.b_task_cluster) NodeTaskHER2 (class in domid.tasks.task_her2) NodeTaskMNIST (class in domid.tasks.task_mnist) NodeTaskMNISTColor10 (class in domid.tasks.task_mnist_color) NodeTaskUnitTest (class in domid.tasks.task_unittest) NodeTaskUSPS (class in domid.tasks.task_usps) NodeTaskWSI (class in domid.tasks.task_wsi) normalize() (domid.dsets.make_graph.GraphConstructor method) P palette (domid.dsets.dset_mnist_color_solo_default.DsetMNISTColorSoloDefault property) parse_cmd_args() (in module domid.arg_parser) parse_machine_labels() (in module domid.dsets.generate_dataset_dataframe_her2) PerfCluster (class in domid.utils.perf_cluster) PerfCorrelationHER2 (class in domid.utils.perf_similarity) post_tr() (domid.trainers.trainer_ae.TrainerAE method) (domid.trainers.trainer_cluster.TrainerCluster method) (domid.trainers.trainer_sdcn.TrainerSDCN method) Prediction (class in domid.compos.predict_basic) pretrain_loss() (domid.trainers.pretraining_GMM.Pretraining method) (domid.trainers.pretraining_KMeans.Pretraining method) (domid.trainers.pretraining_sdcn.PretrainingSDCN method) Pretraining (class in domid.trainers.pretraining_GMM) (class in domid.trainers.pretraining_KMeans) PretrainingSDCN (class in domid.trainers.pretraining_sdcn) probe() (domid.compos.nn_net.Net_MNIST method) R register_external_node() (domid.algos.zoo_algos.AlgoBuilderChainNodeGetter method) run() (in module domid.utils.mean_std) run2() (in module domid.utils.mean_std) S saving_model() (domid.utils.storing.Storing method) sparse_mx_to_torch_sparse_tensor() (domid.dsets.make_graph.GraphConstructor method) Storing (class in domid.utils.storing) storing() (domid.utils.storing.Storing method) storing_z_space() (domid.utils.storing.Storing method) T TaskChainNodeGetter (class in domid.tasks.zoo_tasks) tensorboard_write() (in module domid.compos.tensorboard_fun) test_connection_calc() (in module domid.tests.test_graph) test_data() (in module domid.tests.test_graph) test_fun() (in module domid.models.model_ae) (in module domid.models.model_m2yd) (in module domid.models.model_vade) (in module domid.tasks.task_her2) (in module domid.tasks.task_mnist) (in module domid.tasks.task_unittest) (in module domid.tasks.task_usps) test_graph_methods() (in module domid.tests.test_graph) test_m2yd() (in module domid.tests.test_model_builder) test_M2YD_train_MNISTcolor() (in module domid.tests.test_model_trainer) test_mk_adj_mat() (in module domid.tests.test_graph) test_MNIST_conditionalOne_train() (in module domid.tests.test_model_trainer) test_mnist_length() (in module domid.tests.test_mnist_dataset) test_MNIST_pretrain() (in module domid.tests.test_model_trainer) test_MNIST_train() (in module domid.tests.test_model_trainer) test_MNIST_train_CNN() (in module domid.tests.test_model_trainer) test_mnistcolor10_length() (in module domid.tests.test_mnist_dataset) test_MNISTcolor_AE() (in module domid.tests.test_model_trainer) test_MNISTcolor_pretrain_CNN() (in module domid.tests.test_model_trainer) test_MNISTcolor_SDCN() (in module domid.tests.test_model_trainer) test_MNISTcolor_SDCN_graph_construction_heat() (in module domid.tests.test_graph) test_MNISTcolor_SDCN_graph_construction_ncos() (in module domid.tests.test_graph) test_MNISTcolor_train() (in module domid.tests.test_model_trainer) test_MNISTcolor_train_CNN() (in module domid.tests.test_model_trainer) test_Net_MNIST() (in module domid.compos.nn_net) test_VADE() (in module domid.tests.test_losses) test_VADE_CNN() (in module domid.tests.test_losses) test_VaDE_CNN() (in module domid.tests.test_model_builder) test_VADE_CNN_nonbinary() (in module domid.tests.test_losses) test_VaDE_linear() (in module domid.tests.test_model_builder) test_VADE_nonbinary() (in module domid.tests.test_losses) test_version() (in module domid.tests.test_domid) total_count_images() (in module domid.dsets.generate_dataset_dataframe_her2) tr_epoch() (domid.trainers.trainer_ae.TrainerAE method) (domid.trainers.trainer_cluster.TrainerCluster method) (domid.trainers.trainer_sdcn.TrainerSDCN method) train_MNISTcolor_AE() (in module domid.tests.test_model_trainer) TrainerAE (class in domid.trainers.trainer_ae) TrainerChainNodeGetter (class in domid.trainers.zoo_trainer) TrainerCluster (class in domid.trainers.trainer_cluster) TrainerSDCN (class in domid.trainers.trainer_sdcn) U UnFlatten (class in domid.compos.VAE_blocks)