allen-oephys-to-nwb's Introduction

allen-to-nwb

NWB conversion scripts and tutorials. A collaboration with the Allen Institute.

Install

$ pip install git+https://github.com/catalystneuro/allen-to-nwb

Use

1. Imported and run from a python script:
An example notebook can be found here

2. Graphical User Interface:
To use the GUI, first install nwb-web-gui:

$ pip install nwb-web-gui

The GUI can be run from the terminal:

$ nwbgui-oephys

The NWB Web GUI should open in your browser. If it does not open automatically (and no error messages were printed in your terminal), just open your browser and navigate to localhost:5000.

The GUI eases the task of editing the metadata of the resulting nwb file, it is integrated with the conversion module (conversion on-click) and allows for quick visual exploration the data in the end file with nwb-jupyter-widgets.

allen-oephys-to-nwb's People

Contributors

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allen-oephys-to-nwb's Issues

ophys / ecephys alignment

add stimuli

should not default to now for session start time

https://github.com/catalystneuro/allen-to-nwb/blob/c4faa9ce58a3fe6723d74418ab1b6e34335e9037/allen_oephys_to_nwb/allen_oephys_to_nwb.py#L33

Match datasets

Script that maps raw data from Dataset I associated with processed data files from Dataset II (curated).

repo name

usually the package name and the github repo name are the same. In your repo, you have the repo “allen-to-nwb” and the package “allen_oephys_to_nwb”. Do you want to change the repo name to “allen-oephys-to-nwb”?

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