Fig. 4
Steps of image processing for transfer preparation: A iPSC culture in one well of a six-well-MTP in phase-contrast microscopy with 4x objective and a resolution of 1.3 μm/px. B Section of the phase contrast area with multi-class segmentation via deep learning. Grey: iPSC colonies, blue: single iPSCs, black: background, purple: detached cells, red: differentiated cells, pink: dead cells. C Zoomed view of the colonies, border of the colonies highlighted in green, center as a red cross. The unique colony number and the roundness are written into the image. D XML representation using colony 221 as an example. centerX: center point X-coordinate in px, centerY: center point Y-coordinate in px, size: area of the colony in px2, length: circumference in px, roundness: 4π ∙ size/length, childrenSize: area of inclusions of a different class within the colony, colonyPercent: Percentage of the colony compared to the total area including inclusions