GETTING STARTED

First, install or update the AllenSDK, our Python based toolkit for accessing and working with Allen Institute datasets.

Data is provided in in NWB format and can be downloaded using the AllenSDK, or accessed directly via an S3 bucket (instructions provided in notebook #1 below). Regardless of which method of file download you choose, we recommend that you load and interact with the data using the tools provided in the AllenSDK, which have been designed to simplify data access and subsequent analysis. No knowledge of the NWB file format is required.

To get started, check out these jupyter notebooks:

  1. Download data using the AllenSDK or directly from our Amazon S3 bucket (download .ipynb)
  2. Identifying experiments and sessions of interest using the data manifest (download .ipynb)
  3. Aligning behavioral data to task events with the stimulus and trials tables (download .ipynb)
  4. Plot quality metrics for the ‘units’ identified in these experiments (download .ipynb)
  5. Visual Behavior Neuropixels Quickstart (download .ipynb)

You may also find these tutorials helpful, which were made for students in the Summer Workshop for the Dynamic Brain.

If you have questions about the dataset that aren’t addressed by the whitepaper or any of our tutorials, please reach out by posting at https://community.brain-map.org/

Visual Behavior - Neuropixels

Overview of the dataset

DATA FILE CHANGELOG

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