Metadata/
├── metadata_status
├── name (name of data asset, follows specific structure <modality>_<subject_id>_<date>)
├── quality_control
├── schema_version
├── acquisition/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── protocol_id: array (DOI for protocols.io)
│   ├── experimenter_full_name*: array (First and last name of the experimenter(s))
│   ├── specimen_id*: string
│   ├── subject_id: string or null
│   ├── instrument_id*: string
│   ├── calibrations: array (List of calibration measurements taken prior to acquisition)
│   ├── maintenance: array (List of maintenance on rig prior to acquisition)
│   ├── session_start_time*: string
│   ├── session_end_time*: string
│   ├── session_type: string or null
│   ├── tiles*: array
│   ├── axes*: array
│   ├── chamber_immersion*: enum
│   ├── sample_immersion: string or null
│   ├── active_objectives: array or null
│   ├── local_storage_directory: string or null
│   ├── external_storage_directory: string or null
│   ├── processing_steps: array (List of downstream processing steps planned for each channel)
│   ├── software: object or null
│   └── notes: string or null
│
├── data_description/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── license: string
│   ├── platform*: object (Name for a standardized primary data collection system)
│   ├── subject_id*: string (Unique identifier for the subject of data acquisition)
│   ├── creation_time*: string (Time that data files were created)
│   ├── label: string or null (A short name for the data, used in file names and labels)
│   ├── name: string or null (Name of data, conventionally also the name of the directory)
│   ├── institution*: object (Organization that collected this data)
│   ├── funding_source*: array (Funding source. If internal funding, select 'Allen Institute')
│   ├── data_level*: enum (Level of processing that data has undergone)
│   ├── group: string or null (A short name for the group of individuals that collected this data)
│   ├── investigators*: array (Full name(s) of key investigators)
│   ├── project_name: string or null (A name for a set of coordinated activities)
│   ├── restrictions: string or null (Detail any restrictions on publishing or sharing these data)
│   ├── modality*: array (A short name for the specific manner of data generation)
│   ├── related_data: array (Path and description of associated data assets)
│   └── data_summary: string or null (Semantic summary of experimental goal)
│
├── instrument/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── instrument_id: string or null
│   ├── modification_date*: string
│   ├── instrument_type*: enum
│   ├── manufacturer*: object
│   ├── temperature_control: object or null
│   ├── humidity_control: object or null
│   ├── optical_tables: array
│   ├── enclosure: object or null
│   ├── objectives*: array
│   ├── detectors: array
│   ├── light_sources: array
│   ├── lenses: array
│   ├── fluorescence_filters: array
│   ├── motorized_stages: array
│   ├── scanning_stages: array
│   ├── additional_devices: array
│   ├── calibration_date: string or null
│   ├── calibration_data: string or null
│   ├── com_ports: array
│   ├── daqs: array
│   └── notes: string or null
│
├── procedures/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── subject_id*: string (Unique identifier for the subject)
│   ├── subject_procedures: array
│   ├── specimen_procedures: array
│   └── notes: string or null
│
├── processing/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── processing_pipeline*: enum (Pipeline used to process data)
│   ├── analyses: array (Analysis steps taken after processing)
│   └── notes: string or null
│
├── quality_control/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── evaluations*: array
│   └── notes: string or null
│
├── rig/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── rig_id*: string (Unique rig identifier)
│   ├── modification_date*: string
│   ├── mouse_platform*: object
│   ├── stimulus_devices: array
│   ├── cameras: array
│   ├── enclosure: object or null
│   ├── ephys_assemblies: array
│   ├── fiber_assemblies: array
│   ├── stick_microscopes: array
│   ├── laser_assemblies: array
│   ├── patch_cords: array
│   ├── light_sources: array
│   ├── detectors: array
│   ├── objectives: array
│   ├── filters: array
│   ├── lenses: array
│   ├── digital_micromirror_devices: array
│   ├── polygonal_scanners: array
│   ├── pockels_cells: array
│   ├── additional_devices: array
│   ├── daqs: array
│   ├── calibrations*: array
│   ├── ccf_coordinate_transform: string or null (Path to coordinate transform file)
│   ├── origin: object or null
│   ├── rig_axes: object or null
│   ├── modalities*: array
│   └── notes: string or null
│
├── session/
│   ├── describedBy: string
│   ├── schema_version: string
│   ├── protocol_id: array (DOI for protocols.io)
│   ├── experimenter_full_name*: array (First and last name of the experimenter(s))
│   ├── session_start_time*: string
│   ├── session_end_time: string or null
│   ├── session_type*: string
│   ├── iacuc_protocol: string or null
│   ├── rig_id*: string
│   ├── calibrations: array (Calibrations of rig devices prior to session)
│   ├── maintenance: array (Maintenance of rig devices prior to session)
│   ├── subject_id*: string
│   ├── animal_weight_prior: number or null (Animal weight before procedure)
│   ├── animal_weight_post: number or null (Animal weight after procedure)
│   ├── weight_unit: enum
│   ├── anaesthesia: object or null
│   ├── data_streams*: array (Collection of devices recorded simultaneously)
│   ├── stimulus_epochs: array
│   ├── mouse_platform_name*: string
│   ├── active_mouse_platform*: boolean (Is the mouse platform being actively controlled)
│   ├── headframe_registration: object or null (MRI transform matrix for headframe)
│   ├── reward_delivery: number or null
│   ├── reward_consumed_total: number or null
│   ├── reward_consumed_unit: enum
│   └── notes: string or null
│
└── subject/
    ├── describedBy: string
    ├── schema_version: string
    ├── subject_id*: string (Unique identifier for the subject)
    ├── sex*: enum
    ├── date_of_birth*: string
    ├── genotype: string or null (Genotype of the animal providing both alleles)
    ├── species*: object
    ├── alleles: array (Allele names and persistent IDs)
    ├── background_strain: object or null
    ├── breeding_info: object or null
    ├── source*: object (Where the subject was acquired from)
    ├── rrid: object or null (RRID of mouse if acquired from supplier)
    ├── restrictions: string or null (Any restrictions on use or publishing)
    ├── wellness_reports: array
    ├── housing: object or null
    └── notes: string or null