rna_code package

Subpackages

• rna_code.data package
  • Subpackages
    • rna_code.data.data_module package
      • Submodules
      • rna_code.data.data_module.brca_data_module module
      • rna_code.data.data_module.cptac_3_data_module module
      • rna_code.data.data_module.data_module module
      • Module contents
    • rna_code.data.feature_selection package
      • Submodules
      • rna_code.data.feature_selection.base_feature_selector module
      • rna_code.data.feature_selection.expression_selector module
      • rna_code.data.feature_selection.laplacian_selector module
      • rna_code.data.feature_selection.lasso_selector module
      • rna_code.data.feature_selection.mad_selector module
      • Module contents
    • rna_code.data.interface package
      • Submodules
      • rna_code.data.interface.BRCA_interface module
      • rna_code.data.interface.base_interface module
      • rna_code.data.interface.cptac_3_interface module
      • Module contents
  • Submodules
  • rna_code.data.dataset_builder module
  • Module contents
• rna_code.models package
  • Submodules
  • rna_code.models.autoencoder module
    • Autoencoder
      • Autoencoder.build_decoder()
      • Autoencoder.build_encoder()
      • Autoencoder.configure_optimizers()
      • Autoencoder.encode()
      • Autoencoder.forward()
      • Autoencoder.reparameterize()
      • Autoencoder.training_step()
  • rna_code.models.cnn_ae module
    • CNNAutoencoder
      • CNNAutoencoder.build_decoder()
      • CNNAutoencoder.build_encoder()
  • rna_code.models.mlp_ae module
    • MLPAutoencoder
      • MLPAutoencoder.build_decoder()
      • MLPAutoencoder.build_encoder()
  • rna_code.models.model_builder module
    • ModelBuilder
      • ModelBuilder.generate_model()
  • rna_code.models.residual_stack module
    • ResidualStack
      • ResidualStack.forward()
  • rna_code.models.vector_quantizer module
    • VectorQuantizer
      • VectorQuantizer.forward()
  • rna_code.models.vq_conversion module
    • vq_conversion
      • vq_conversion.forward()
  • rna_code.models.vq_pre_residual_stack_decoder module
    • vq_pre_residual_stack_decoder
      • vq_pre_residual_stack_decoder.forward()
  • Module contents
• rna_code.utils package
  • Submodules
  • rna_code.utils.dataset_merger module
    • DatasetMerger
      • DatasetMerger.intersect()
      • DatasetMerger.union()
  • rna_code.utils.experiment module
  • rna_code.utils.helpers module
    • encode_recon_dataset()
    • generate_config()
  • rna_code.utils.monitor_callback module
    • MetricsComputer
      • MetricsComputer.compute_hopkins()
      • MetricsComputer.compute_metrics()
    • MonitorCallback
      • MonitorCallback.get_encoded_data()
      • MonitorCallback.on_train_batch_end()
      • MonitorCallback.on_train_epoch_end()
  • rna_code.utils.search module
  • rna_code.utils.transfert_leanring_experiment module
  • rna_code.utils.visualization module
    • dataset_plot()
    • post_training_animation()
    • post_training_viz()
  • Module contents

Module contents