Systems and methods for tissue bounds detection
Assignee10x Genomics, Inc.
InventorDavid P. Hoffman
Life of this patent
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Abstract
A method for determining axial bounds of a tissue sample is provided. A plurality of images of a sample is received. The plurality of images includes a plurality of z-stacks and each z-stack in the plurality of z-stacks represents at least a portion of a volume of the sample. For each z-stack in the plurality of z-stacks, a focus score is determined for each image within the z-stack and a thickness of the z-stack is determined based on the focus scores. Axial bounds of the sample are determined based on the determined thicknesses.
Claims20
A method comprising:
- receiving a plurality of images of a sample, the plurality of images comprising a plurality of z-stacks, wherein each z-stack in the plurality of z-stacks represents at least a portion of a volume of the sample;
- for each z-stack in the plurality of z-stacks:
- determining a focus score for each image within the z-stack;
- and
- determining a thickness of the z-stack based on the focus scores;
- determining, based on the determined thicknesses, axial bounds of the sample;
- and
- determining, based on the determined thicknesses, the lateral bounds of the sample.
A non-transitory computer readable storage medium having program instructions embodied therewith, the program instructions executable by a processor to cause the processor to perform a method comprising:
- receiving a plurality of images of a sample, the plurality of images comprising a plurality of z-stacks, wherein each z-stack in the plurality of z-stacks represents at least a portion of a volume of the sample;
- for each z-stack in the plurality of z-stacks:
- determining a focus score for each image within the z-stack;
- and
- determining a thickness of the z-stack based on the focus scores;
- determining, based on the determined thicknesses, axial bounds of the sample representing an imageable volume;
- and
- determining, based on the determined thicknesses, the lateral bounds of the sample.
A system comprising:
- an image database;
- and
- a computing node comprising a computer readable storage medium having program instructions embodied therewith, the program instructions executable by a processor to cause the processor to perform a method comprising:
- receiving a plurality of images of a sample from the image database, the plurality of images comprising a plurality of z-stacks, wherein each z-stack in the plurality of z-stacks represents at least a portion of a volume of the sample;
- for each z-stack in the plurality of z-stacks:
- determining a focus score for each image within the z-stack;
- and
- determining a thickness of the z-stack based on the focus scores;
- determining, based on the determined thicknesses, axial bounds of the sample;
- and
- determining, based on the determined thicknesses, the lateral bounds of the sample.
Dependencies are inferred from the claim text.