anyvlm

Contents

  • Getting Started
    • Quick Start: Docker Compose
      • Prerequisites
      • Steps
      • Available Docker Compose Configurations
      • Full stack with AnyVar
  • Features
    • Variant-Level Matching (VLM) Protocol
    • Cohort Allele Frequency (CAF) Retrieval
    • VCF Ingestion
    • AnyVar Storage Backend
    • Genomics Standards Conformance
  • Usage
    • Submitting VCFs
      • VCF Requirements
      • Response
    • Retrieving CAFs
      • Parameters
      • Response
    • GA4GH Service Info
  • Configuration
    • VLM API
    • Storage
      • Storage Connection
    • AnyVar
    • Logging
      • Default Behavior
      • Customizing Logging Configuration
      • Applying Logging Configuration
      • Example YAML Configuration
    • Example .env file
    • Docker Compose
      • Overview
      • Environment variables
      • Volumes
      • Running the default stack
      • Development configuration
      • Running tests
      • Makefile shortcuts
  • API Reference
    • General
    • Storage
      • anyvlm.storage.base_storage
        • Storage
        • StorageError
      • anyvlm.storage.mapper_registry
        • MapperRegistry
      • anyvlm.storage.mappers
        • AlleleFrequencyMapper
        • BaseMapper
      • anyvlm.storage.orm
        • AlleleFrequencyData
        • Base
        • create_tables()
        • session_factory()
      • anyvlm.storage.postgres
        • PostgresObjectStore
    • AnyVar Clients
      • anyvlm.anyvar.http_client
        • HttpAnyVarClient
      • anyvlm.anyvar.python_client
        • PythonAnyVarClient
  • Getting Help
  • Changelog
  • Contributing
    • Installing For Development
    • Testing
    • Documentation
  • Project Roadmap
    • Version 1.1
    • Version 1.x
  • License
anyvlm
  • Search

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