Package qupath.lib.images.servers
Class TransformedServerBuilder
java.lang.Object
qupath.lib.images.servers.TransformedServerBuilder
Helper class for creating an
ImageServer that applies one or more transforms to another (wrapped) ImageServer.
Note: This is an early-stage experimental class, which may well change!
- Author:
- Pete Bankhead
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Constructor Summary
ConstructorsConstructorDescriptionTransformedServerBuilder(ImageServer<BufferedImage> baseServer) Create a transformedImageServer. -
Method Summary
Modifier and TypeMethodDescriptionPerform an average (mean) projection of the channels.build()Get theImageServerthat applies all the requested transforms.concatChannels(Collection<ImageServer<BufferedImage>> additionalChannels) Concatenate a collection of additional servers along the 'channels' dimension (iteration order is used).concatChannels(ImageServer<BufferedImage>... additionalChannels) Concatenate additional servers along the 'channels' dimension.crop(ImageRegion region) Crop an specified region based on a bounding box.deconvolveStains(ColorDeconvolutionStains stains, int... stainNumbers) Apply color deconvolution to the brightfield image, so that deconvolved stains behave as separate channels/extractChannels(int... channels) Extract specified channels for an image.extractChannels(String... names) Extract specified channels for an image.Perform a maximum projection of the channels.Perform a minimum projection of the channels.reorderRGB(String order) Rearrange the channel order of an RGB image.rotate(RotatedImageServer.Rotation rotation) Rotate the image, using an increment of 90 degrees.transform(AffineTransform transform) Apply anAffineTransformto the server.
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Constructor Details
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TransformedServerBuilder
Create a transformedImageServer.- Parameters:
baseServer- the initial server that will be transformed.
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Method Details
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crop
Crop an specified region based on a bounding box.- Parameters:
region-- Returns:
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transform
Apply anAffineTransformto the server. Note that the transform must be invertible, otherwise andIllegalArgumentExceptionwill be thrown.- Parameters:
transform-- Returns:
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deconvolveStains
public TransformedServerBuilder deconvolveStains(ColorDeconvolutionStains stains, int... stainNumbers) Apply color deconvolution to the brightfield image, so that deconvolved stains behave as separate channels/- Parameters:
stains- the stains to apply for color deconvolutionstainNumbers- the indices of the stains that should be use (an array compressing values that are 1, 2 or 3); if not specified, all 3 stains will be used.- Returns:
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reorderRGB
Rearrange the channel order of an RGB image. This is intended for cases where an image has wrongly been interpreted as RGB or BGR.- Parameters:
order-- Returns:
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rotate
Rotate the image, using an increment of 90 degrees.- Parameters:
rotation-- Returns:
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extractChannels
Extract specified channels for an image.- Parameters:
channels- indices (0-based) of channels to extract.- Returns:
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extractChannels
Extract specified channels for an image.- Parameters:
names- names of channels to extract.- Returns:
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maxChannelProject
Perform a maximum projection of the channels.- Returns:
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averageChannelProject
Perform an average (mean) projection of the channels.- Returns:
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minChannelProject
Perform a minimum projection of the channels.- Returns:
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concatChannels
public TransformedServerBuilder concatChannels(Collection<ImageServer<BufferedImage>> additionalChannels) Concatenate a collection of additional servers along the 'channels' dimension (iteration order is used).- Parameters:
additionalChannels- additional servers that will be applied as channels; note that these should be of an appropriate type and dimension for concatenation.- Returns:
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concatChannels
Concatenate additional servers along the 'channels' dimension.- Parameters:
additionalChannels- additional servers from which channels will be added; note that the servers should be of an appropriate type and dimension for concatenation.- Returns:
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build
Get theImageServerthat applies all the requested transforms.- Returns:
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