All Classes and Interfaces
Class
Description
Calculates any needed orientation change.
Writes a single channel to a file.
Retrieves a
Channel by name from a particular time-point.A mapping of assigned channel-names to particular indices.
Creates a
ChannelMap for a particular OpenedImageFile.Writes a display-stack to the filesystem.
Similar to
DrawObjectsGenerator, but with the background stack cropped to focus only on
the region containing objects.Creates images of object(s) drawn on a background only in a local region around their bounding
box.
Generates stacks of RGB images using a
DrawObject to draw objects on a background.An iterable-generator that outputs the portion of a stack corresponding to a bounding-box
Exposes a
NamedProviderStore<TimeSeries> as a NamedProviderStore<Stack> by
extracting a frame from each series.Extracts a
Point3i representing the mid-point of an ObjectWithProperties.Draws a filled-in shape for each object.
Performs a flattening (maximum intensity projection in each channel) of the output of another
writer
Like a
StackGenerator but first applies a maximum-intensity-projection.Uses a
StackReader to read the image-metadata.Settings and methods for writing to the filesystem from a generator.
A generator that writes a
ObjectCollection to a HDF5 file.Paths to identify objects in the HDF5 for object-masks.
Writes a histogram to a CSV file.
Reads a CSV file from the file-system that describes a histogram of voxel values.
Branches to two different
DrawObject depending on a predicate.Interface for the condition that is tested, to determine which
DrawObject to use.Creates instances of
ImageInitialization based upon an InputOutputContext.When an error occurs reading or writing an image to/from the file-system.
An input that provides a
ImageMetadata but only lazily when first called.Reads an
ImageMetadata from the file-system.This combines
ImageFileAttributes plus a timestamp for image-acqusition.A particular
Channel to be read from a file, identified by its position (index) in the
file.Extends an
InputManager to add a StackReader bean property.Utility functions for reading a
Mask from the file-system.Exposes one or more instances of a
NamedChannelsMap as a single aggregated NamedChannelsMap.Provides a set of channels as an input, with each channel having a name.
One part of a
NamedChannelsInput that can be combined with others.A collection of
Channels, each identified by a unique name and a time-index.Outputs a named-set of stacks, performing appropriate checks on what is enabled or not.
Writes an object-mask as a mask (i.e.
Reads an
ObjectCollection from the filesystemCentralized point to access a
Generator which writes an ObjectCollection to the
file-system.Base class for generators that accept a set of objects as input.
A base class for generators that draw an
ObjectCollection upon a RGBStack.Writes objects as an image with an incrementing unique integer id value for each object.
Writes objects merged together as a mask.
Like
ObjectAsMaskGenerator but additionally outputs a serialized bounding box.A base-class for a
StackWriter that writes an image that has either one or three
channels.An image file that has been opened for reading containing one or more series of image-
Stacks.A set of named
Channels available from an OpenedImageFile.Draws the outline of each object-mask.
Specifies a table of feature-calculations on objects.
Creates output-sequences of different kinds for writing stacks to a directory.
Base class for inputs which somehow eventually send up providing stacks, with or without names.
Writes each object as a binary
Mask in a directory.Transforms an entity to a
Stack and writes it to the file-system.Allows us to call an
RasterGenerator<S> as if it was an RasterGenerator<T> using
an function to connect the two.Delegates a
RasterGeneratorSelectFormat to a SingleFileTypeGenerator<T,
DisplayStack>.Uses a delegate raster-generator and optionally applies a conversions before calling
RasterGeneratorDelegateToRaster.transform(T).A
RasterGenerator that selects an appropriate output-format based upon each generated
image.A stack that can be used as a background (and maybe scaled).
Writes a stack to the filesystem.
Common identifiers used for storing particular types of images.
Combines a
Provider<Stack> with a label.Reads an image-
Stack from the file-system.A
StackReader that supports the correction of orientation as images are read from the
file-system.Whether a stack is RGB or RGBA or neither.
Provides a single stack (or a time series of such stacks) as an input
Attributes describing stack which may determine which writer is used.
Creates
StackWriteAttributes to describe certain attributes.A combination of attributions describing how to write a particular stack and any suggestions from
the user.
Writes a stack (i.e.
The size and style of text as it should appear in an image.
Tile multiple
StackProviders into a single StackProvider.Tiles a number of
StackProviderWithLabels as a single StackProvider.An ordered collection of
Stacks, each representing a frame in a time-series.Helps create similar error messages among
StackWriters.Creates an image that contains text only.