cytomining / cytomining/DeepProfiler

Request of clarifications about processed data in `cpg0019`

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Hi! Thanks for creating this great resource. I was aware that the processed datasets used in this study have been uploaded to CPG as indicated [here](https://broadinstitute.github.io/cellpainting-gallery/machine_learning.html) -- thanks for sharing!

~I was wondering if you could kindly clarify if the processed dataset only contains the training split (but not the validation split, so that it is not the full processed e.g. cpg0012 dataset), since the parent folder is named `training_images` (e.g. `cpg0019-moshkov-deepprofiler/broad/training_images/BBBC036/`). Also, it seems that there are much fewer folders in the processed BBBC036 compared with the original cpg0012 images as in [here](https://open.quiltdata.com/b/cellpainting-gallery/tree/cpg0012-wawer-bioactivecompoundprofiling/broad/images/CDRP/images/). For example, `24277` is not in the processed version of BBBC036/CDRP, and even in `24278`, there are many subfolders missing in the processed dataset compared with the raw dataset. Could you please clarify?~ (See third comment.) I would also appreciate it if you could suggest possible ways to acquire the full processed datasets. If that's not readily available, could you please kindly point me towards the script/notebook that would generate the processed images from raw ones?

Thank you very much in advance! Happy New Year!

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