NWB Workshops and Hackathons

Back to the projects list

NWB:N Jupyter widgets

Key Investigators

• Matt McCormick (Kitware)
• Ben Dichter (LBL)

Project Description

Visualize cortical surfaces from NWB:N in an interactive Jupyter widget.

Objectives

• When browsing a NWB:N file with nwbwidgets in Jupyter and an ECoG cortical surface is encountered, a 3D, interactive visualization of the surface is available.

Approach and Plan

1. Get NWB ECoG data
2. Reformat for display as a mesh with itk-jupyter-widgets / vtk.js
3. Implement show_ function for cortical functions in nwb-jupyter-widgets
4. Add support for cortical electrodes.

Progress and Next Steps

During the hackathon, we made considerable progress on the NWB Jupyter widgets for visualizing NWB:N behavioral files from the Allen Institute:

We made some progress on the cortical surface visualization. We will follow up with this effort in the nwb-jupyter-widgets Issue Tracker.

Materials

• NWB extension for ECoG data1
• Example visualization in MayaVI

Background and References

• Source code: https://github.com/NeurodataWithoutBorders/nwb-jupyter-widgets
• Test data: EC125.nwbaux