All Classes

This plugin implements the Help/About ImageJ command by opening about.jpg in ij.jar, scaling it 600% and adding text to an overlay.

This plugin animates stacks.

Autothresholding methods (limited to 256 bin histograms) from the Auto_Threshold plugin (http://fiji.sc/Auto_Threshold) by G.Landini at bham dot ac dot uk).

ImageJ Plugin for reading an AVI file into an image stack (one slice per video frame) Restrictions and Notes: - Only few formats supported: - uncompressed 8 bit with palette (=LUT) - uncompressed 8 & 16 bit grayscale - uncompressed 24 & 32 bit RGB (alpha channel ignored) - uncompressed 32 bit AYUV (alpha channel ignored) - various YUV 4:2:2 and 4:2:0 compressed formats (i.e., formats with full luminance resolution, but reduced chroma resolution - png or jpeg-encoded individual frames.

Implements ImageJ's Subtract Background command.

This plugin implements the File/Batch/Measure command, which measures all the images in a user-specified folder.

Implements the Plugins/Utilities/Run Benchmark command.

Implements the Erode, Dilate, Open, Close, Outline, Skeletonize and Fill Holes commands in the Process/Binary submenu.

This class processes binary images.

A class for reading arbitrary numbers of bits from a byte array.

This plugin reads BMP files.

This plugin implements the File/Import/URL command and the commands in the Help menu that open web pages.

This class does bit blitting of byte images.

8-bit image statistics, including histogram.

This plugin implements the Analyze/Tools/Calibration Bar command.

This plugin implements the Image/Adjust/Canvas Size command.

Displays the ImageJ "Channels" dialog.

This class implements the Process/FFT/Make Circular Selection command.

Copies/pastes images to/from the system clipboard.

Displays a dialog that allows the user to select a color using three sliders.

This is an 32-bit RGB image and methods that operate on that image..

ColorSpaceConverter

Selects pixels according to hsb or rgb components.

Plugins that implement this interface are notified when ImageJ is about to run a menu command.

Runs miscellaneous File and Window menu commands.

Compiles and runs plugins using the javac compiler.

This plugin implements the Brightness/Contrast, Window/level and Color Balance commands, all in the Image/Adjust sub-menu.

ControlPanel.

This plugin convolves images using user user defined kernels.

Curve fitting class based on the Simplex method in the Minimizer class Notes on fitting polynomial functions: (i) The range of x values should not be too far from 0, especially for higher-order polynomials.

PlugIns or PlugInFilters that want to listen to changes in a GenericDialog without adding listeners for each dialog field should implementthis method.

DICOM utilities

This plugin implements the Analyze/Distribution command.

This class opens images, roi's, luts and text files dragged and dropped on the "ImageJ" window.

This is a simple TextArea based editor for editing and compiling plugins.

This class fits an ellipse to an ROI.

This plugin implements the Plugins/Utilities/Monitor Events command.

ImageJ plugins that process an image may implement this interface.

This class implements the FFT, Inverse FFT and Redisplay Power Spectrum commands in the Process/FFT submenu.

This class implements the Process/FFT/Bandpass Filter command.

This class contains a Java implementation of the Fast Hartley Transform.

This plugin opens a multi-page TIFF file, or a set of raw images, as a virtual stack.

Saves images in tiff, gif, jpeg, raw, zip and text format.

This plugin implements the Invert, Smooth, Sharpen, Find Edges, and Add Noise commands.

Opens and displays FITS images.

ImageJ plugin that does curve fitting using the modified CurveFitter class.

This class does bit blitting of 32-bit floating-point images.

This is an 32-bit floating-point image and methods that operate on that image.

This class, which does flood filling, is used by the floodFill() macro function and by the particle analyzer The Wikipedia at "http://en.wikipedia.org/wiki/Flood_fill" has a good description of the algorithm used here as well as examples in C and Java.

This class contains static utility methods for replacing fonts that are not available on the current system.

Freehand region of interest or freehand line of interest

This class implements the built-in macro functions.

This class is a customizable modal dialog box.

Saves the active image in GIF format, or as an animated GIF if the image is a stack.

Implements the Image/Stacks/Tools/Grouped Z Project command.

This plugin implements the Analyze/Histogram command.

This class is an extended ImageWindow that displays histograms.

This is modal or non-modal dialog box that displays HTML formated text.

This plugin implements the File/New/Hyperstack command.

This class consists of static utility methods.

Plugins that implement this interface are notified when the user changes the foreground color, changes the background color, closes the color picker, closes the Log window or switches to another tool.

This plugin implements the Process/Image Calculator command.

This class converts an ImagePlus object to a different type.

This frame is the main ImageJ class.

Handles exceptions on the EDT.

This is a custom layout manager that supports resizing of zoomed images.

An Adapter class for the ImageListener interface.

This class is used by GenericDialog to add images to dialogs.

This abstract class is the superclass for classes that process the four data types (byte, short, float and RGB) supported by ImageJ.

Reads raw 8-bit, 16-bit or 32-bit (float or RGB) images from a stream or URL.

This class represents an expandable array of images.

Implements the Image/Stacks/Images to Stack" command.

Writes a raw image described by a FileInfo object to an OutputStream.

This is an extended ColorProcessor that supports signed 32-bit int images.

Displays the Java system properties in a text window.

The File/Save As/Jpeg command (FileSaver.saveAsJpeg() method) uses this plugin to save images in JPEG format.

Dedicated point iterator for thin lines.

Adjusts the width of line selections.

This class provides the functionality to divert output sent to the System.out and System.err streams to ImageJ's log console.

This is an indexed color model that allows an lower and upper bound to be specified.

This plugin implements the Image/Lookup Tables/Apply LUT command.

Displays the active image's look-up table.

This class runs macros and scripts installed in the Plugins menu as well as macros and scripts opened using the Plugins/Macros/Run command.

This class runs macros in a separate thread.

This ImageJ plug-in filter finds the maxima (or minima) of an image.

Saves a table as a csv or tab-delimited text file.

This plugin implements the Edit/Options/Memory command.

This class installs and updates ImageJ's menus.

Minimizer based on Nelder-Mead simplex method (also known as polytope method), including the 'outside contraction' as described in: J.C.

Custom component for displaying multiple lines.

This class creates a new macro or the Java source for a new plugin.

This is an extension of GenericDialog that is non-modal.

Opens tiff (and tiff stacks), dicom, fits, pgm, jpeg, bmp or gif images, and look-up tables, using a file open dialog or a path.

This plugin projects dynamically orthogonal XZ and YZ views of a stack.

Oval region of interest

This plugin implements the Image/Overlay/Labels command.

Implements ImageJ's Paste Control window.

This plugin continuously displays the pixel values of the cursor and its surroundings.

This subclass of ImageCanvas has special provisions for plots: - Zooming: sets the plot range - Scrolling: moves data area This behavior is suppressed if the plot is frozen

This is a virtual stack of frozen plots.

Plugins that acquire images or display windows should implement this interface.

This is a non-modal dialog that plugins can extend.

Installs plugins dragged and dropped on the "ImageJ" window, or plugins, macros or scripts opened using the Plugins/Install command.

This plugin implements the Edit/Options/Point Tool command.

This class represents a polygon region of interest or polyline of interest.

This plugin implements the File/Page Setup and File/Print commands.

Implements the Analyze/Plot Profile and Edit/Options/Profile Plot Options commands.

This is the progress bar that is displayed in the lower right hand corner of the ImageJ window.

This plugin implements the Plugins/Utilities/Proxy Settings command.

This plugin implements the Mean, Minimum, Maximum, Variance, Median, Remove Outliers, Remove NaNs and Despeckle commands.

Opens, in a separate thread, files selected from the File/Open Recent submenu.

This plugin implements the rounded rectangle tool dialog box.

This is a table for storing measurement results and strings as columns of values.

Converts a 2 or 3 slice stack, or a hyperstack, to RGB.

Deprecated; replaced by ij.plugin.ChannelSplitter.

This class decodes an ImageJ .roi file.

Saves an ROI to a file or stream.

This class interpolates between ROIs in the ROI Manager.

This plugin implements the Analyze/Tools/ROI Manager command.

Opens ImageJ, NIH Image and Scion Image for windows ROI outlines.

This plugin implements the Edit/Selection/Rotate command.

Saves the current ROI outline to a file.

This plugin implements the Image/Rotate/Arbitrarily command.

A modal dialog box with a one line message and "Don't Save", "Cancel" and "Save" buttons.

This plugin implements the Analyze/Tools/Scale Bar command.

This plugin implements the Image/Scale command.

This class, based on Joachim Walter's Image5D package, adds "c", "z" labels and play-pause icons (T) to the stack and hyperstacks dimension sliders.

Implements the commands in the Process/Shadows submenu.

This class does bit blitting of 16-bit images.

16-bit image statistics, including histogram.

This plugin implements the Plugins/Utilities/Unlock, Image/Rename and Plugins/Utilities/Search commands.

This plugin implements the Edit/Selection/Specify command.

This plugin implements the Image/Stacks/Statistics command.

This class does stack type conversions.

This plugin, which implements the Image/Stacks/Tools/Insert command, inserts an image or stack into another image or stack.

The plugin implements the Image/Stacks/Tools/Montage to Stack command.

This class processes stacks.

This plugin implements the Image/Transform/Flip Z and Image/Stacks/Tools/Reverse commands.

This class is an extended ImageWindow that displays stacks and hyperstacks.

This plugin implements the Edit/Options/Startup command.

This plugin implements the Edit/Selection/Straighten command.

This plugin is used by the Image/Stacks/Tools/Make Substack command to create substacks of hyperstacks.

This class "synchronizes" mouse input in multiple windows.

This plugin implements the Edit/Options/Fonts command and the dialog displayed when you double click on the text tool.

This plugin displays the contents of a text file in a window.

This plugin opens a tab or comma delimeted text file as an image.

Uses a TextPanel to displays text in a window.

Displays thread information in a text window.

Adjusts the lower and upper threshold levels of the active image.

Saves an image described by a FileInfo object as an uncompressed TIFF file.

The ImageJ toolbar.

Implements the Flip and Rotate commands in the Image/Transform submenu.

This is an extended Button class used to reduce the width of the HUGE buttons on Mac OS X.

This class consists of static methods and fields that implement ImageJ's Undo command.

Opens TIFFs, ZIP compressed TIFFs, DICOMs, GIFs and JPEGs using a URL.

This is a non-modal dialog box used to ask the user to perform some task while a macro or plugin is running.

This plugin implements the Edit/Options/Wand Tool command.

This class consists of static methods used to manage ImageJ's windows.

Writes the XY coordinates and pixel values of all non-background pixels to a tab-delimited text file.

A modal dialog box with a one line message and "Yes", "No" and "Cancel" buttons.

This plugin implements the commands in the Image/Zoom submenu.