DeepRVAT

Contents:

  • Installation
  • Quick start
  • Modes of usage
  • DeepRVAT preprocessing pipeline
  • DeepRVAT annotation pipeline
  • Seed gene discovery
  • DeepRVAT configuration and input data
  • Association testing with precomputed gene impairment scores
  • Association testing using pretrained DeepRVAT models
  • Training and association testing
  • Output file formats
  • Cluster execution
  • Practical recommendations for training
  • Applying DeepRVAT to UK Biobank data
  • API Reference
    • deeprvat
      • Subpackages
        • deeprvat.deeprvat
        • deeprvat.seed_gene_discovery
        • deeprvat.annotations
        • deeprvat.preprocessing
        • deeprvat.data
      • Submodules
        • deeprvat.utils
        • deeprvat.metrics
        • deeprvat.cv_utils
DeepRVAT
  • API Reference
  • deeprvat
  • View page source

deeprvat

Subpackages

  • deeprvat.deeprvat
    • deeprvat.deeprvat.evaluate
    • deeprvat.deeprvat.common_variant_condition_utils
    • deeprvat.deeprvat.associate
    • deeprvat.deeprvat.train
    • deeprvat.deeprvat.models
    • deeprvat.deeprvat.config
  • deeprvat.seed_gene_discovery
    • deeprvat.seed_gene_discovery.seed_gene_discovery
    • deeprvat.seed_gene_discovery.evaluate
  • deeprvat.annotations
    • deeprvat.annotations.annotations
  • deeprvat.preprocessing
    • deeprvat.preprocessing.preprocess
  • deeprvat.data
    • deeprvat.data.rare
    • deeprvat.data.dense_gt

Submodules

  • deeprvat.utils
  • deeprvat.metrics
  • deeprvat.cv_utils
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© Copyright 2026, Clarke, B., Holtkamp, E., Öztürk, H., Mück, M., Wahlberg, M., Meyer, K., Munzlinger, F., Brechtmann, F., Hölzlwimmer, F., Gagneur, J., Stegle, O..

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