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create script to generate csvs #42

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toloudis opened this issue Sep 21, 2022 · 2 comments
Open

create script to generate csvs #42

toloudis opened this issue Sep 21, 2022 · 2 comments
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@toloudis
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Each dataset should also generate a csv file with the feature data, containing the following per-row:
cell id, fov id (needed?), each feature value, downloadable file path to cell ome-tiff, downloadable file path to fov ome-tiff (needed?)

Column names for features should be the feature names (or keys?) from the feature defs json file.
also as a proposal:

cell_id
fov_id
cell_download_url
fov_download_url
@toloudis
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@lynwilhelm @meganrm I've added this task as I believe it's a dependency for allen-cell-animated/cell-feature-explorer#117

@toloudis
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toloudis commented Jan 5, 2023

This is worked around for the time being because we have csv data that is distributed independently via Quilt.

Generally that csv is considered to be a superset of the features we show in CFE, but as far as I know, it does not contain download links to image data! A csv generated by scripts in this repo could integrate that data as well.

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