Index _ | A | B | C | D | E | F | G | L | M | N | O | P | R | S | T | U | V _ __getitem__() (scmiracle.data.BasicModDataset method) (scmiracle.data.CSVDataset method) (scmiracle.data.MTXDataset method) (scmiracle.data.MultiModalDataset method) (scmiracle.data.VECDataset method) __iter__() (scmiracle.data.MultiBatchContinualLearningSampler method) (scmiracle.data.MultiBatchSampler method) (scmiracle.data.MyDistributedSampler method) __len__() (scmiracle.data.BasicModDataset method) (scmiracle.data.CSVDataset method) (scmiracle.data.MTXDataset method) (scmiracle.data.MultiBatchContinualLearningSampler method) (scmiracle.data.MultiBatchSampler method) (scmiracle.data.MultiModalDataset method), [1] (scmiracle.data.MyDistributedSampler method) (scmiracle.data.VECDataset method) __subset__() (scmiracle.data.BasicModDataset method) (scmiracle.data.CSVDataset method) (scmiracle.data.MTXDataset method) (scmiracle.data.MultiModalDataset method) (scmiracle.data.VECDataset method) A ActivationRegistry (class in scmiracle.nn) automatic_optimization (scmiracle.model.MIDAS attribute) B BallTreeSubsample() (in module scmiracle.utils) BasicModDataset (class in scmiracle.data) bernoulli_sampling() (scmiracle.nn.DistributionRegistry static method) binarize() (scmiracle.nn.TransformRegistry static method) C calc_consistency_loss() (scmiracle.model.MIDAS static method) calc_dsc_loss() (scmiracle.model.MIDAS static method) calc_kld_loss() (scmiracle.model.MIDAS static method) calc_kld_z_loss() (scmiracle.model.MIDAS static method) calc_recon_loss() (scmiracle.model.MIDAS static method) calculate_loss() (scmiracle.model.Discriminator method) calculate_loss_scale() (in module scmiracle.utils) configs (scmiracle.model.MIDAS attribute) configure_data() (scmiracle.model.MIDAS class method) configure_data_from_dir() (scmiracle.model.MIDAS class method) configure_new_data_from_dir() (scmiracle.model.MIDAS class method) configure_optimizers() (scmiracle.model.MIDAS method) convert_tensor_to_list() (in module scmiracle.utils) convert_tensors_to_cuda() (in module scmiracle.utils) CSVDataset (class in scmiracle.data) D Decoder (class in scmiracle.model) detach_tensors() (in module scmiracle.utils) Discriminator (class in scmiracle.model) DistributionRegistry (class in scmiracle.nn) download_data() (in module scmiracle.data) download_file() (in module scmiracle.data) download_models() (in module scmiracle.data) download_script() (in module scmiracle.data) dsc (scmiracle.model.MIDAS attribute) E encode_batch() (scmiracle.model.VAE method) Encoder (class in scmiracle.model) exp() (in module scmiracle.utils) (scmiracle.nn.TransformRegistry static method) extract_params() (in module scmiracle.utils) extract_values() (in module scmiracle.utils) F filter_keys() (in module scmiracle.utils) forward() (scmiracle.model.Decoder method) (scmiracle.model.Discriminator method) (scmiracle.model.Encoder method) (scmiracle.model.S_Decoder method) (scmiracle.model.S_Encoder method) (scmiracle.model.VAE method) (scmiracle.nn.Layer1D method) (scmiracle.nn.MLP method) G gen_real_data() (scmiracle.model.VAE method) generate_all_combinations() (in module scmiracle.utils) generate_unified_latent() (scmiracle.model.VAE method) get() (scmiracle.nn.ActivationRegistry method) (scmiracle.nn.TransformRegistry method) get_activate() (scmiracle.nn.DistributionRegistry method) get_all() (scmiracle.data.MTXDataset method) get_datasets_from_dir() (scmiracle.model.MIDAS class method) get_dim_h() (scmiracle.model.VAE method) get_emb_umap() (scmiracle.model.MIDAS method) get_filenames() (in module scmiracle.utils) get_info_from_dir() (scmiracle.model.MIDAS static method) get_inverse() (scmiracle.nn.TransformRegistry method) get_loss() (scmiracle.nn.DistributionRegistry method) get_name_fmt() (in module scmiracle.utils) get_pred_dirs() (in module scmiracle.utils) get_s_joint_mods() (in module scmiracle.utils) get_sampling() (scmiracle.nn.DistributionRegistry method) L Layer1D (class in scmiracle.nn) list_registered() (scmiracle.nn.ActivationRegistry method) (scmiracle.nn.DistributionRegistry method) (scmiracle.nn.TransformRegistry method) load_checkpoint() (scmiracle.model.MIDAS method) load_config() (in module scmiracle.config) load_csv() (in module scmiracle.utils) load_mtx() (in module scmiracle.utils) load_predicted() (in module scmiracle.utils) log() (in module scmiracle.utils) log1p() (scmiracle.nn.TransformRegistry static method) log_losses() (scmiracle.model.MIDAS method) M MIDAS (class in scmiracle.model) mkdir() (in module scmiracle.utils) mkdirs() (in module scmiracle.utils) MLP (class in scmiracle.nn) module scmiracle.config scmiracle.data scmiracle.model scmiracle.nn scmiracle.plot scmiracle.utils MTXDataset (class in scmiracle.data) MultiBatchContinualLearningSampler (class in scmiracle.data) MultiBatchSampler (class in scmiracle.data) MultiModalDataset (class in scmiracle.data) MyDistributedSampler (class in scmiracle.data) N net (scmiracle.model.MIDAS attribute) (scmiracle.nn.Layer1D attribute) (scmiracle.nn.MLP attribute) null() (scmiracle.nn.DistributionRegistry static method) (scmiracle.nn.TransformRegistry static method) O on_train_end() (scmiracle.model.MIDAS method) on_train_epoch_end() (scmiracle.model.MIDAS method) P pack_data() (scmiracle.model.MIDAS method) plot_umap() (in module scmiracle.plot) plot_umap_grid() (in module scmiracle.plot) plot_z_umap_grid() (in module scmiracle.plot) poe() (scmiracle.model.VAE static method) poisson_sampling() (scmiracle.nn.DistributionRegistry static method) predict() (scmiracle.model.MIDAS method) print_info() (scmiracle.model.MIDAS static method) R ref_sort() (in module scmiracle.utils) register() (scmiracle.nn.ActivationRegistry method) (scmiracle.nn.DistributionRegistry method) (scmiracle.nn.TransformRegistry method) reset() (scmiracle.model.MIDAS class method) reverse_dict() (in module scmiracle.utils) reverse_trsf() (in module scmiracle.utils) rmdir() (in module scmiracle.utils) S S_Decoder (class in scmiracle.model) S_Encoder (class in scmiracle.model) safe_append() (in module scmiracle.utils) sample() (scmiracle.model.VAE static method) sample_gaussian() (scmiracle.model.VAE static method) sample_latent() (scmiracle.model.VAE method) save_checkpoint() (scmiracle.model.MIDAS method) save_list_to_csv() (in module scmiracle.utils) save_list_to_mtx() (in module scmiracle.utils) save_tensor_to_csv() (in module scmiracle.utils) save_tensor_to_mtx() (in module scmiracle.utils) scmiracle.config module scmiracle.data module scmiracle.model module scmiracle.nn module scmiracle.plot module scmiracle.utils module T train_dataloader() (scmiracle.model.MIDAS method) train_discriminator() (scmiracle.model.MIDAS method) training_step() (scmiracle.model.MIDAS method) TransformRegistry (class in scmiracle.nn) U unzip_file() (in module scmiracle.data) update() (scmiracle.model.MIDAS method) update_model() (scmiracle.model.MIDAS static method) V VAE (class in scmiracle.model) VECDataset (class in scmiracle.data)