Quality Control

Recorded Statistics

• tot_cell_num: total number of cells in image
• Max_Intensity: max pixel intensity across the entire image
• Min_Intensity: min pixel intensity across the entire image
• Mean_Intensity: mean pixel intensity across the entire image
• Blur: variance of inverse of laplacian scaled by cell count (see this link)
• InFocus: boolean based on preset Blur threshold (2700). this is very dataset dependent, so your mileage may vary when using our threshold for a different dataset
• Usable: False if InFocus is False, and vice versa
• Mean_Foreground_Intensity: mean pixel intensity of foreground identified using Otsu's method
• Mean_Background_Intensity: mean pixel intensity of background identified using Otsu's method
• SNR: signal-to-noise ratio