Index _ | A | B | C | D | E | F | G | I | L | M | N | O | P | Q | R | S | T | U | V | W | Z _ __getitem__() (scmidas.data.adataDataset method) (scmidas.data.BasicModDataset method) (scmidas.data.CSVDataset method) (scmidas.data.MTXDataset method) (scmidas.data.MultiModalDataset method) (scmidas.data.VECDataset method) __iter__() (scmidas.data.MultiBatchSampler method) (scmidas.data.MyDistributedSampler method) __len__() (scmidas.data.BasicModDataset method) (scmidas.data.CSVDataset method) (scmidas.data.MTXDataset method) (scmidas.data.MultiBatchSampler method) (scmidas.data.MultiModalDataset method) (scmidas.data.MyDistributedSampler method) (scmidas.data.VECDataset method) A ActivationRegistry (class in scmidas.nn) adataDataset (class in scmidas.data) automatic_optimization (scmidas.model.MIDAS attribute) B BaseSink (class in scmidas.utils) BasicModDataset (class in scmidas.data) bernoulli_sampling() (scmidas.nn.DistributionRegistry static method) binarize() (scmidas.nn.TransformRegistry static method) C calc_consistency_loss() (scmidas.model.MIDAS static method) calc_dsc_loss() (scmidas.model.MIDAS static method) calc_kld_loss() (scmidas.model.MIDAS static method) calc_kld_z_loss() (scmidas.model.MIDAS static method) calc_recon_loss() (scmidas.model.MIDAS static method) calculate_loss() (scmidas.model.Discriminator method) configs (scmidas.model.MIDAS attribute) configure_data() (scmidas.model.MIDAS class method) configure_data_from_dir() (scmidas.model.MIDAS class method) configure_data_from_mdata() (scmidas.model.MIDAS class method) configure_optimizers() (scmidas.model.MIDAS method) convert_tensor_to_list() (in module scmidas.utils) convert_tensors_to_cuda() (in module scmidas.utils) CSVDataset (class in scmidas.data) D Decoder (class in scmidas.model) detach_tensors() (in module scmidas.utils) Discriminator (class in scmidas.model) DiskSink (class in scmidas.utils) DiskSinkConfig (class in scmidas.utils) DistributionRegistry (class in scmidas.nn) download_data() (in module scmidas.data) download_file() (in module scmidas.data) download_models() (in module scmidas.data) download_script() (in module scmidas.data) dsc (scmidas.model.MIDAS attribute) E encode_batch() (scmidas.model.VAE method) Encoder (class in scmidas.model) ensure_dir() (in module scmidas.utils) exp() (in module scmidas.utils) (scmidas.nn.TransformRegistry static method) extract_params() (in module scmidas.utils) extract_values() (in module scmidas.utils) F filter_keys() (in module scmidas.utils) finalize() (scmidas.utils.BaseSink method) (scmidas.utils.DiskSink method) (scmidas.utils.MemorySink method) finalize_centroid() (scmidas.utils.OnlineMeanByGroup method) fname_pattern (scmidas.utils.DiskSinkConfig attribute) forward() (scmidas.model.Decoder method) (scmidas.model.Discriminator method) (scmidas.model.Encoder method) (scmidas.model.S_Decoder method) (scmidas.model.S_Encoder method) (scmidas.model.VAE method) (scmidas.nn.Layer1D method) (scmidas.nn.MLP method) from_dir() (in module scmidas.datasets) G gen_real_data() (scmidas.model.VAE method) generate_all_combinations() (in module scmidas.utils) generate_unified_latent() (scmidas.model.VAE method) get() (scmidas.nn.ActivationRegistry method) (scmidas.nn.TransformRegistry method) get_activate() (scmidas.nn.DistributionRegistry method) get_all() (scmidas.data.MTXDataset method) get_datasets_from_adata() (scmidas.model.MIDAS static method) get_datasets_from_dir() (scmidas.model.MIDAS static method) get_dim_h() (scmidas.model.VAE method) get_emb_umap() (scmidas.model.MIDAS method) get_filenames() (in module scmidas.utils) get_imputed_values() (scmidas.model.MIDAS method) get_info_from_dir() (scmidas.model.MIDAS static method) get_info_from_mdata() (scmidas.model.MIDAS static method) get_inverse() (scmidas.nn.TransformRegistry method) get_latent_representation() (scmidas.model.MIDAS method) get_loss() (scmidas.nn.DistributionRegistry method) get_name_fmt() (in module scmidas.utils) get_pred_dirs() (in module scmidas.utils) get_s_joint_mods() (in module scmidas.utils) get_sampling() (scmidas.nn.DistributionRegistry method) I integrate() (in module scmidas.api) L Layer1D (class in scmidas.nn) list_registered() (scmidas.nn.ActivationRegistry method) (scmidas.nn.DistributionRegistry method) (scmidas.nn.TransformRegistry method) load() (scmidas.model.MIDAS class method) load_checkpoint() (scmidas.model.MIDAS method) load_config() (in module scmidas.config) load_csv() (in module scmidas.utils) load_mtx() (in module scmidas.utils) load_predicted() (in module scmidas.utils) log() (in module scmidas.utils) log1p() (scmidas.nn.TransformRegistry static method) log_losses() (scmidas.model.MIDAS method) M MemorySink (class in scmidas.utils) MIDAS (class in scmidas.model) mkdir() (in module scmidas.utils) mkdirs() (in module scmidas.utils) MLP (class in scmidas.nn) modality_grid() (in module scmidas.plot) module scmidas.api scmidas.config scmidas.data scmidas.datasets scmidas.model scmidas.nn scmidas.plot scmidas.utils MTXDataset (class in scmidas.data) MultiBatchSampler (class in scmidas.data) MultiModalDataset (class in scmidas.data) MyDistributedSampler (class in scmidas.data) N net (scmidas.model.MIDAS attribute) (scmidas.nn.Layer1D attribute) (scmidas.nn.MLP attribute) null() (scmidas.nn.DistributionRegistry static method) (scmidas.nn.TransformRegistry static method) O on_train_end() (scmidas.model.MIDAS method) on_train_epoch_end() (scmidas.model.MIDAS method) OnlineMeanByGroup (class in scmidas.utils) P plot_umap() (in module scmidas.plot) plot_umap_grid() (in module scmidas.plot) plot_z_umap_grid() (in module scmidas.plot) poe() (scmidas.model.VAE static method) poisson_sampling() (scmidas.nn.DistributionRegistry static method) predict() (scmidas.model.MIDAS method) print_info() (scmidas.model.MIDAS static method) Q quickstart() (in module scmidas.datasets) quickstart_path() (in module scmidas.datasets) R ref_sort() (in module scmidas.utils) register() (scmidas.nn.ActivationRegistry method) (scmidas.nn.DistributionRegistry method) (scmidas.nn.TransformRegistry method) reverse_dict() (in module scmidas.utils) reverse_trsf() (in module scmidas.utils) rmdir() (in module scmidas.utils) S S_Decoder (class in scmidas.model) S_Encoder (class in scmidas.model) safe_append() (in module scmidas.utils) sample() (scmidas.model.VAE static method) sample_gaussian() (scmidas.model.VAE static method) sample_latent() (scmidas.model.VAE method) save() (scmidas.model.MIDAS method) save_checkpoint() (scmidas.model.MIDAS method) save_dir (scmidas.utils.DiskSinkConfig attribute) save_format (scmidas.utils.DiskSinkConfig attribute) save_list_to_csv() (in module scmidas.utils) save_list_to_mtx() (in module scmidas.utils) save_tensor_to_csv() (in module scmidas.utils) save_tensor_to_mtx() (in module scmidas.utils) scmidas.api module scmidas.config module scmidas.data module scmidas.datasets module scmidas.model module scmidas.nn module scmidas.plot module scmidas.utils module setup_mudata() (scmidas.model.MIDAS static method) T to_numpy() (in module scmidas.utils) train() (scmidas.model.MIDAS method) train_dataloader() (scmidas.model.MIDAS method) train_discriminator() (scmidas.model.MIDAS method) training_step() (scmidas.model.MIDAS method) TransformRegistry (class in scmidas.nn) U umap() (in module scmidas.plot) unzip_file() (in module scmidas.data) update() (scmidas.utils.OnlineMeanByGroup method) update_model() (scmidas.model.MIDAS static method) V VAE (class in scmidas.model) VECDataset (class in scmidas.data) W write() (scmidas.utils.BaseSink method) (scmidas.utils.DiskSink method) (scmidas.utils.MemorySink method) write_meta() (scmidas.utils.BaseSink method) (scmidas.utils.DiskSink method) (scmidas.utils.MemorySink method) Z z_to_adata_or_mdata() (in module scmidas.utils)
