NWB conversion tools

NWB Conversion Tools is a package for creating NWB files by converting and combining neural data in proprietary formats and adding essential metadata.

Under heavy construction. API is changing rapidly.

Features:

• Command line interface
• Python API
• Leverages SpikeExtractor to support conversion from a number or proprietary formats.

Installation

To install nwb-conversion-tools directly in an existing environment:

$ pip install nwb-conversion-tools

Alternatively, to clone the repository and set up a conda environment, do:

$ git clone https://github.com/catalystneuro/nwb-conversion-tools
$ cd nwb-conversion-tools
$ conda env create -f make_env.yml
$ conda activate nwb_conversion_env
$ pip install .

Dependencies

NWB Conversion Tools relies heavily on SpikeExtractors for electrophysiology and on ROIExtractors for optophysiology data.

You can use a graphical interface for your converter with NWB Web GUI.

Rebuilding on Read the Docs

As a maintainer, once the changes to the documentation are on the master branch, go to https://readthedocs.org/projects/nwb-conversion-tools/ and click "Build version". Check the console output and its log for any errors.

Used by

• Axel lab: axel-lab-to-nwb
• Brunton lab: brunton-lab-to-nwb
• Buffalo lab: buffalo-lab-data-to-nwb
• Buzsáki Lab: buzsaki-lab-to-nwb
• Giocomo lab: giocomo-lab-to-nwb
• Jaeger lab: jaeger-lab-to-nwb
• Mease lab: mease-lab-to-nwb
• Movson lab: movshon-lab-to-nwb
• Tolias lab: tolias-lab-to-nwb