Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Request (Allen Brain Observatory Data): Access to ophys metadata as csv files #2694

Open
ehennestad opened this issue Jul 2, 2023 · 0 comments

Comments

@ehennestad
Copy link

ehennestad commented Jul 2, 2023

The ecephys metadata for the ABO Visual Coding Dataset in the S3 bucket are available as CSV files (i.e sessions.csv, probes.csv), whereas the ophys metadata is available as json (i.e ophys_experiments.json, cell_specimens.json).

As far as I can see, all of these files contain tabular data, and my request would be to also provide the ophys metadata as csv files.

The reason is the following: The json files are large files (especially the cell_specimens.json at ~460 MB), mostly because all the column names are repeated for each row, and the number of rows are large. Additionally, parsing such a large json file takes a while. Having these files available as csv files would speed up both download and parsing/conversion to tabular data for users interested in working with these metadata.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

No branches or pull requests

1 participant