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Tutorials

Installation

Installation of the Element requires an integrated development environment and database. Instructions to setup each of the components can be found on the User Instructions page. These instructions use the example workflow for Element Array Ephys, which can be modified for a user's specific experimental requirements. This example workflow uses several Elements (Lab, Animal, Session, Event, and Electrophysiology) to construct a complete pipeline, and is able to ingest experimental metadata and run model training and inference.

Videos

The Element Array Ephys tutorial gives an overview of the workflow files and notebooks as well as core concepts related to Electrophysiology.

YouTube tutorial

Notebooks

Each of the notebooks in the workflow (download here steps through ways to interact with the Element itself. For convenience, these notebooks are also rendered as part of this site. To try out the Elements notebooks in an online Jupyter environment with access to example data, visit CodeBook. (Electrophysiology notebooks coming soon!)

  • Data Download highlights how to use DataJoint tools to download a sample model for trying out the Element.
  • Configure helps configure your local DataJoint installation to point to the correct database.
  • Workflow Structure demonstrates the table architecture of the Element and key DataJoint basics for interacting with these tables.
  • Process steps through adding data to these tables and launching key Electrophysiology features, like model training.
  • Automate highlights the same steps as above, but utilizing all built-in automation tools.
  • Explore demonstrates how to fetch data from the Element.
  • Drop schemas provides the steps for dropping all the tables to start fresh.
  • Downstream Analysis highlights how to link this Element to Element Event for event-based analyses.
  • Visualizations highlights how to use a built-in module for visualizing units, probes and quality metrics.
  • Electrode Localization demonstrates how to link this Element to Element Electrode Localization.
  • NWB Export highlights the export functionality available for the no-curation schema.