IDR/idr0125-way-cellpainting

Roadmap to publication in IDR

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This issue lists the various tasks to be completed in order to import and curate the idr0125 data into IDR.
The data will be imported in OME-NGFF HCS format.

  • Handle import of large numbers of files in an NGFF plate: ome/ZarrReader#40
  • Then, update production IDR with Bio-Formats containing the ZarrReader updates and any other OMERO changes needed
  • Mount s3 data as a file-system using e.g. https://github.com/kahing/goofys to allow OMERO to read the data
  • Import the data into IDR by importing METADATA.ome.xml for each NGFF fileset, then using mkngff to update the Fileset to the mounted s3 data
  • Curate the metadata and annotate the imported data