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Portfolio

NWB:N

INCFSN:
INCFSN-20-01
Endorsed on:
Review comments:
https://f1000research.com/documents/8-1731
License:
BSD-3
RRID:
RRID:SCR_015242
Tags:
Electrophysiology
Data format
Metadata format
Python
HDF5
MATLAB
Standards

About

Neurodata Without Borders (usually abbreviated NWB, formally referred to as NWB:N) is a data standard for neurophysiology, providing neuroscientists with a common standard to share, archive, use, and build analysis tools for neurophysiology data. NWB is designed to store a variety of neurophysiology data, including data from intracellular and extracellular electrophysiology experiments, data from optical physiology experiments, and tracking and stimulus data. NWB exists in an ecosystem, which includes data management, analysis, visualization, and archive tools. Thus, the NWB data language enables reproduction, interchange, and reuse of diverse neurophysiology data.

Learn more about NWB on their website and connect with the NWB community on Slack and Twitter.
NWB

Links

TrainingSpace lectures
Intro to NWB
NWB webpage

Similar standards

NIX

Supporting software

1. PyNWB (Python API)

PyNWB (Python API)

2. MatNWB (MATLAB API)

MatNWB (MATLAB API)

3. Analysis and visualizations tools integrated with NWB

  1. NWB Explorer for interactive exploration of NWB files

  2. SpikeInterface for building spike sorters

  3. CellExplorer for exploring and classifying cells from extracellular electrophysiology experiments

  4. Neo: provides a uniform data access API across electrophysiology formats

  5. CaImAn for image segmentation of optical physiology data

  6. suite2p for image segmentation of optical physiology data

  7. CIAtah for image segmentation of optical physiology data

  8. EXTRACT for image segmentation of optical physiology data

  9. MIES for collecting intracellular electrophysiology data

  10. PatchView for analyzing intracellular electrophysiology data

  11. DeepLabCut  for automatic pose estimation

  12. SLEAP for automatic pose estimation

  13. pynapple for neurophysiology data analysis

4. NWB Example datasets

NWB Example datasets

5. DANDI Archive for sharing NWB data

See the DANDI archive for sharing NWB data

6. DANDI Archive user guide

DANDI Archive user guide

Usage scenario

  • Use NWB:N for you neurophysiology data if you want to share, archive, use, and build common analysis tools for:

    • Extracellular electrophysiology data
    • Intracellular electrophysiology data
    • Optical physiology data (e.g. calcium and voltage imaging)
    • Behavior tracking data
    • Sensory stimuli and neuro-modulatory stimuli data