Automated system for imaging, identification, and isolation of organoids

A system, comprising:

• an imaging device to obtain in real-time one or more images of one or more cell rafts including one or more cells;
• at least one processing circuitry;
• and
• at least one non-transitory storage media storing instructions, that when executed by the at least one processing circuitry, cause the at least one processing circuitry to:
• process the one or more images of the one or more cell rafts including the one or more cells, the at least one processing circuitry to:
• receive the one or more images of the one or more cell rafts from the imaging device;
• segment the one or more images based on one or more distinct color blobs within the one or more images:
• determine that segmentation was unsuccessful;
• generate a histogram of a count of one or more predetermined colors of pixels along at least one axis of the one or more images and identifying one or more boundaries at one or more peaks of the histogram;
• generate one or more lines between the one or more boundaries at the one or more peaks of the histogram;
• and
• repeat segmentation of the one or more images subsequent to the generating of the one or more lines;
• extract one or more features from the one or more processed images in response to a query identifying one or more search criteria, the one or more processed images are of the one or more cell rafts including the one or more cells and are representative of the one or more cell rafts at least at one of:
• a predetermined point in time, during a predetermined period of time, and any combination thereof;
• filter, using one or more filters, one or more areas of interest defined by the one or more features extracted from the one or more processed images, and identify at least one cell data associated with at least one cell in the one or more cells using the filtered one or more areas of interest;
• and
• generate a graphical representation of the identified at least one cell data and/or the one or more cell rafts based on the repeated segmenting and present the graphical representation on a graphical user interface of at least one computing device.

A computer program product comprising a non-transitory machine-readable medium storing instructions that, when executed by at least one processing circuit, cause the at least one processing circuit to perform operations comprising:

• obtaining in real-time, using an imaging device, one or more images of one or more cell rafts including one or more cells;
• receiving the one or more images of the one or more cell rafts including the one or more cells;
• processing the one or more images, including:
• segmenting the one or more images based on one or more distinct color blobs within the one or more images;
• determining that the segmenting was unsuccessful;
• generating a histogram of a count of one or more predetermined colors of pixels along at least one axis of the one or more images and identifying one or more boundaries at one or more peaks of the histogram;
• generating one or more lines between the one or more boundaries at the one or more peaks of the histogram;
• and
• repeating the segmenting of the one or more images subsequent to the generating of the one or more lines until the segmenting is determined to be successful;
• extracting one or more features from the one or more processed images based on one or more search criteria;
• filtering, using one or more filters, the one or more processed images, and identifying at least one cell data associated with at least one cell in the one or more cells using the filtered one or more images;
• and
• generating a graphical representation of the identified at least one cell data and/or the one or more cell rafts based on the repeated segmenting and presenting the graphical representation on a graphical user interface of at least one computing device.