A resource for kick-starting work with the Elephant library

The Python library Electrophysiology Analysis Toolkit (Elephant) provides tools for the analysis of neuronal activity data, such as spike trains, local field potentials and intracellular data. In addition to providing a platform for sharing analysis codes from different laboratories, Elephant provides a consistent and homogeneous framework for data analysis, built on a modular foundation. The underlying data model is the Neo library, a framework which easily captures a wide range of neuronal data types and methods, including dozens of file formats and network simulation tools. A common data description, as provided by the Neo library, is essential for developing interoperable analysis workflows.

In this collaborative space, we provide hands on video tutorials based on Jupyter notebooks that showcase various types of data analysis, from simple to advanced. Most notebooks are based on a common dataset published at https://gin.g-node.org/INT/multielectrode_grasp (for details cf. Brochier et al (2018) Scientific Data 5, 180055. https://doi.org/10.1038/sdata.2018.55). All video tutorials are approximately 30 minutes in length.

Access to the material

To access the tutorials, check out the drive space of this Collab. Video are available for download in the videos section, whereas the corresponding Jupyter notebooks are available in the notebooks folder. Notebooks can either be run directly on the Collaboratory (currently limited to HBP affiliated members), or downloaded and run locally. For local execution, please use the provided requirements.txt file to generate an appropriate Python environment.