Raw images (.tif), ROI files (.roi), and morphological analysis outputs (.jpg) of day 18 input organoids tested for their morphological features against reference dataset. + .csv file with the results of the morphological analysis of reference+input organoids with and without organoid size descriptors (.csv). + pca data of reference and input organoids (.xlsx)

Raw images (.tif), ROI files (.roi), and morphological analysis outputs (.jpg) of day 18 input organoids tested for their morphological features against reference dataset. + .csv file with the results of the morphological analysis of reference+input organoids with and without organoid size descriptors (.csv). + pca data of reference+input organoids (.xlsx)Input organoids we tested on the reference pool are generated according to the following protocols: CondCO CondSWbCOEFC, CondSWbCO, CondCOnoMG, CondbCOC. CondCO – cerebral organoids made according to an optimized protocol with a proprietary media but lacking patterning molecules; CondCOnoMG – CO without exposure to Matrigel; CondSWbCO – guided cerebral organoid treated with SMAD WNT (TGFß and WNT) inhibitors; CondSWbCOEFC – guided cerebral organoid treated with SMAD WNT (TGFß and WNT) inhibitors plus treatment with epidermal growth factor (EGF), fibroblast growth factor (FGF), and GSK3 Inhibitor/WNT Activator (CHIR-99021) during neuroepithelial expansion; CondbCOC – unguided cerebral organoid in basal medium plus treatment with GSK3 Inhibitor/WNT Activator (CHIR-99021) during neuroepithelial expansion.B=batch number For further details on the protocol steps refer to Chiaradia, Imaz-Rosshandler et al., 20232.