Package qupath.ext.biop.cellpose

Class OpCreators

java.lang.Object

qupath.ext.biop.cellpose.OpCreators

public class OpCreators
extends Object

Helper class for creating new ImageOps based upon other image properties.

This addresses that problem that every ImageOp only knows about the image tile that it 'sees' at runtime. This means that all processing needs to be local.

Often, we want ops to use information from across the entire image - particularly for normalization as a step in preprocessing, such as when normalizing to zero mean and unit variance across the entire image.

Before this class, this was problematic because either the parameters needed to be calculated elsewhere (which was awkward), or else normalization would always treat each image tile independent - which could result in tiles within the same image being normalized in very different ways.

Since:

v0.4.0

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	OpCreators.ImageNormalizationBuilder	Builder for a OpCreators.TileOpCreator that can be used for image preprocessing using min/max percentiles or zero-mean-unit-variance normalization.
static class	OpCreators.PercentileTileOpCreator	Tile op creator that computes offset and scale values across the full image to normalize using min and max percentiles.
static interface	OpCreators.TileOpCreator	Helper class for creating (tile-based) ImageOps with parameters that are derived from an entire image or ROI.
static class	OpCreators.ZeroMeanVarianceTileOpCreator	Tile op creator that computes offset and scale values across the full image to normalize to zero mean and unit variance.

Constructor Summary

Constructors

Constructor	Description
OpCreators()

Method Summary

Modifier and Type	Method	Description
static OpCreators.ImageNormalizationBuilder	imageNormalizationBuilder()	Build a normalization op that can be based upon the entire (2D) image, rather than only local tiles.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

OpCreators

public OpCreators()

Method Details

imageNormalizationBuilder

public static OpCreators.ImageNormalizationBuilder imageNormalizationBuilder()

Build a normalization op that can be based upon the entire (2D) image, rather than only local tiles.

Note that currently this requires downsampling the image to a manageable size.

Returns: