Data Resources¶

The Allen SDK features Python code to support data and model access for the Allen Cell Types Database. Resources for other Allen Brain Atlas data resources will come in future updates.

  • Brain Observatory
    • Data Processing
    • Getting Started
    • Precomputed Cell Metrics
  • Cell Types
    • Examples
    • Cell Types Cache
    • Feature Extraction
    • File Formats
      • Morphology SWC Files
      • Neurodata Without Borders
      • HDF5 Overview
  • Mouse Connectivity
    • Structure-Level Projection Data
    • Voxel-Level Projection Data
    • Code Examples
    • Mouse Connectivity Cache
    • File Formats
      • NRRD Files
  • Reference Space
    • Structure Tree
    • Annotation Volumes
    • ReferenceSpaceCache Class
  • API Access
    • RMA Database and Service API
    • Using Pandas to Process Query Results
    • Caching Queries on Disk
  • Visual Coding – Neuropixels
    • Getting Started
    • Data Processing
    • Visual Stimulus Sets
    • AllenSDK 2.0 and Data Compatability
    • Quality Metrics
    • Precomputed Stimulus Metrics
  • GETTING STARTED
    • Prerequisites
  • VISUAL BEHAVIOR OPTICAL PHYSIOLOGY DATASETS
  • BEHAVIORAL TRAINING
  • 2-PHOTON IMAGING DURING BEHAVIOR
  • DATA PROCESSING
  • QUALITY CONTROL
  • SUMMARY OF AVAILABLE DATA
  • DATA FILE CHANGELOG

Contents

  • Install Guide
  • Data Resources
    • Brain Observatory
    • Cell Types
    • Mouse Connectivity
    • Reference Space
    • API Access
    • Visual Coding – Neuropixels
    • GETTING STARTED
    • VISUAL BEHAVIOR OPTICAL PHYSIOLOGY DATASETS
    • BEHAVIORAL TRAINING
    • 2-PHOTON IMAGING DURING BEHAVIOR
    • DATA PROCESSING
    • QUALITY CONTROL
    • SUMMARY OF AVAILABLE DATA
    • DATA FILE CHANGELOG
  • Models
    • Generalized LIF
    • Biophysical
  • Examples
  • Authors
  • Source Documentation
    • allensdk.api package
    • allensdk.brain_observatory package
    • allensdk.config package
    • allensdk.core package
    • allensdk.ephys package
    • allensdk.internal package
    • allensdk.model package
    • allensdk.morphology package
    • allensdk.mouse_connectivity package
    • allensdk.test_utilities package
    • allensdk.deprecated module
  • Github Profile

Questions

For help with problems or questions using the AllenSDK, please create an issue on Github's issue tracker or submit your question to StackOverflow with the 'allen-sdk' tag.

For any other questions, search the Community Forum or start a new topic.

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