Patch Specs

Bases: TypedDict

A dictionary that specifies a single patch in a series of ImageStacks.

Attributes:

• data_idx (int) –

  Determines which ImageStack a patch belongs to, within a series of ImageStacks.

• sample_idx (int) –

  Determines which sample a patch belongs to, within an ImageStack.

• coords (sequence of int) –

  The top-left (and first z-slice for 3D data) of a patch. The sequence will have length 2 or 3, for 2D and 3D data respectively.

• patch_size (sequence of int) –

  The size of the patch. The sequence will have length 2 or 3, for 2D and 3D data respectively.

Bases: PatchSpecs

A dictionary that specifies a single patch in a series of ImageStacks.

Attributes:

• data_idx (int) –

  Determines which ImageStack a patch belongs to, within a series of ImageStacks.

• sample_idx (int) –

  Determines which sample a patch belongs to, within an ImageStack.

• coords (sequence of int) –

  The top-left (and first z-slice for 3D data) of a patch. The sequence will have length 2 or 3, for 2D and 3D data respectively.

• patch_size (sequence of int) –

  The size of the patch. The sequence will have length 2 or 3, for 2D and 3D data respectively.

• crop_coords (sequence of int) –

  The top-left side of where the tile will be cropped, in coordinates relative to the tile.

• crop_size (sequence of int) –

  The size of the cropped tile.

• stitch_coords (sequence of int) –

  Where the tile will be stitched back into an image, taking into account that the tile will be cropped, in coords relative to the image.

• total_tiles (int) –

  Number of tiles belonging to the same data.

Bases: PatchSpecs

Each channel comes from a different location in the dataset.

This kind of patch can be used in the MicroSplit training pipeline.

Attributes:

• principal_channel (int) –

  An index that represents the channel that the main patch specs describe.

• all_data_idx (Sequence[int]) –

  A sequence that contains the data index that each channel patch belongs to.

• all_sample_idx (Sequence[int]) –

  A sequence that contains the sample index that each channel patch belongs to.

• all_coords (Sequence[Sequence[int]]) –

  The coordinate of each channel patch.