Modular single cell ingest

cytomining / pycytominer

Python package for processing image-based profiling data

https://pycytominer.readthedocs.io

BSD 3-Clause "New" or "Revised" License

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Modular single cell ingest #112

Open gwaybio opened 3 years ago

gwaybio commented 3 years ago

As currently defined in aggregate.py, the class AggregateProfiles() works using SQLite files only.

We have added parquet functionality in cytomining/cytominer-database#122 and are finalizing the addition in cytomining/cytominer-database#130.

The task in this issue is to develop a cyto_utils.single_cell_ingest_utils.py file that will automatically detect file type and convert to a dataframe for easy processing in by cells.py in #111

gwaybio commented 1 year ago

solution related to #120 #260 #206