Uses of Class
ij.ImagePlus
Packages that use ImagePlus
Package
Description
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Uses of ImagePlus in ij
Modifier and TypeMethodDescriptionstatic ImagePlus
IJ.createHyperStack
(String title, int width, int height, int channels, int slices, int frames, int bitdepth) Creates a new hyperstack.ImagePlus.createHyperStack
(String title, int channels, int slices, int frames, int bitDepth) This method has been replaced by IJ.createHyperStack().static ImagePlus
IJ.createImage
(String title, int width, int height, int depth, int bitdepth) Creates a new image.static ImagePlus
IJ.createImage
(String title, String type, int width, int height, int depth) Creates a new imagePlus.static ImagePlus
IJ.createImage
(String title, String type, int width, int height, int channels, int slices, int frames) Creates a new hyperstack.ImagePlus.createImagePlus()
Returns a new ImagePlus with this image's attributes (e.g.ImagePlus.crop()
Returns a copy this image or stack slice, cropped if there is an ROI.Multi-roi cropping with default "slice" option.Returns an array of cropped images based on the provided list of rois.Returns a cropped copy this image or stack, where 'options' can be "stack", "slice", "whole-slice" or a range (e.g., "20-30").ImagePlus.duplicate()
Returns a copy of this image or stack.ImagePlus.flatten()
Returns a "flattened" version of this image, or stack slice, in RGB format.static ImagePlus
ImagePlus.getClipboard()
Returns the internal clipboard or null if the internal clipboard is empty.static ImagePlus
WindowManager.getCurrentImage()
Returns a reference to the active image or null if there isn't one.static ImagePlus
IJ.getImage()
Returns a reference to the active image, or displays an error message and aborts the plugin or macro if no images are open.static ImagePlus
IJ.getImage
(Interpreter interpreter) The macro interpreter uses this method to call getImage().static ImagePlus
WindowManager.getImage
(int imageID) For IDs less than zero, returns the ImagePlus with the specified ID.static ImagePlus
Returns the first image that has the specified title or null if it is not found.static ImagePlus
WindowManager.getTempCurrentImage()
Returns the temporary current image for this thread, or null.static ImagePlus
IJ.openImage()
Opens an image using a file open dialog and returns it as an ImagePlus object.static ImagePlus
Opens the specified file as a tiff, bmp, dicom, fits, pgm, gif, jpeg or text image and returns an ImagePlus object if successful.static ImagePlus
Opens the nth image of the specified tiff stack.static ImagePlus
IJ.openVirtual
(String path) Opens the specified tiff file as a virtual stack.Returns a scaled copy of this image or ROI, where the 'options' string can contain 'none', 'bilinear'.Returns a scaled copy of this image or ROI, where the 'options' string can contain 'none', 'bilinear'.Modifier and TypeMethodDescriptionvoid
ImagePlus.copyAttributes
(ImagePlus imp) Used internally.void
Copies the LUTs and display mode of 'imp' to this image.void
Copies the calibration of the specified image to this image.static ImageStack
Creates an ImageStack from an ImagePlus array.static void
Runs a menu command on a separete thread, using the specified image.static int
This version of doWand adds an ImagePlus argument.static String
WindowManager.getUniqueName
(ImagePlus imp, String name) static double
Returns a measurement result, where 'measurement' is "Area", "Mean", "StdDev", "Mode", "Min", "Max", "X", "Y", "XM", "YM", "Perim.", "BX", "BY", "Width", "Height", "Major", "Minor", "Angle", "Circ.", "Feret", "IntDen", "Median", "Skew", "Kurt", "%Area", "RawIntDen", "Ch", "Slice", "Frame", "FeretX", "FeretY", "FeretAngle", "MinFeret", "AR", "Round", "Solidity", "MinThr" or "MaxThr".void
ImageListener.imageClosed
(ImagePlus imp) void
ImageListener.imageOpened
(ImagePlus imp) void
ImageListener.imageUpdated
(ImagePlus imp) static void
IJ.resetMinAndMax
(ImagePlus img) Resets the minimum and maximum displayed pixel values of the specified image to be the same as the min and max pixel values.static void
IJ.resetThreshold
(ImagePlus img) Disables thresholding on the specified image.static void
Runs an ImageJ command using the specified image and options.static Object
Runs the specified plugin using the specified image.static void
Saves the specified image, lookup table or selection to the specified file path.static void
static boolean
IJ.saveAsTiff
(ImagePlus imp, String path) Saves the specified image in TIFF format.static void
Undo.saveOverlay
(ImagePlus imp) static void
IJ.setAutoThreshold
(ImagePlus imp, String method) void
Replaces this image with the specified ImagePlus.static void
IJ.setMinAndMax
(ImagePlus img, double min, double max) Sets the display range (minimum and maximum displayed pixel values) of the specified image.static void
IJ.setRawThreshold
(ImagePlus img, double lowerThreshold, double upperThreshold) This is a version of setThreshold() that uses raw (uncalibrated) values in the range 0-255 for 8-bit images and 0-65535 for 16-bit images and the "Red" LUT display mode.static void
IJ.setRawThreshold
(ImagePlus img, double lowerThreshold, double upperThreshold, String displayMode) This is a version of setThreshold() that always uses raw (uncalibrated) values in the range 0-255 for 8-bit images and 0-65535 for 16-bit images.static void
WindowManager.setTempCurrentImage
(ImagePlus img) Makes the specified image temporarily the active image for this thread.static void
WindowManager.setTempCurrentImage
(Thread thread, ImagePlus img) Sets a temporary image for the specified thread.static void
IJ.setThreshold
(ImagePlus img, double lowerThreshold, double upperThreshold) Sets the lower and upper threshold levels of the specified image.static void
IJ.setThreshold
(ImagePlus img, double lowerThreshold, double upperThreshold, String displayMode) Sets the lower and upper threshold levels of the specified image and updates the display using the specifieddisplayMode
("Red", "Black & White", "Over/Under" or "No Update").static void
static int
IJ.setupDialog
(ImagePlus imp, int flags) Displays a "Process all images?" dialog.static void
static void
static String
Experimentalstatic void
Menus.updateWindowMenuItem
(ImagePlus imp, String oldLabel, String newLabel) Changes the name of an item in the Window menu.ModifierConstructorDescriptionCompositeImage
(ImagePlus imp) CompositeImage
(ImagePlus imp, int mode) Create an Executer that runs the specified menu command in a separate thread using the specified image, or using the active image if 'imp' is null. -
Uses of ImagePlus in ij.gui
Modifier and TypeFieldDescriptionprotected ImagePlus
Roi.clipboard
protected ImagePlus
ImageCanvas.imp
protected ImagePlus
ImageWindow.imp
protected ImagePlus
ProfilePlot.imp
protected ImagePlus
Roi.imp
Modifier and TypeMethodDescriptionstatic ImagePlus
NewImage.createByteImage
(String title, int width, int height, int slices, int options) static ImagePlus
NewImage.createFloatImage
(String title, int width, int height, int slices, int options) static ImagePlus
NewImage.createImage
(String title, int width, int height, int nSlices, int bitDepth, int options) static ImagePlus
NewImage.createIntImage
(String title, int width, int height, int slices, int options) static ImagePlus
NewImage.createRGBImage
(String title, int width, int height, int slices, int options) static ImagePlus
NewImage.createShortImage
(String title, int width, int height, int slices, int options) Creates an unsigned short image.static ImagePlus
NewImage.createUnsignedShortImage
(String title, int width, int height, int slices, int options) Deprecated.Short images are always unsigned.ImageCanvas.getImage()
Returns the ImagePlus object that is associated with this ImageCanvas.Roi.getImage()
Returns the ImagePlus associated with this ROI, or null.ImageWindow.getImagePlus()
Plot.getImagePlus()
Returns the plot as an ImagePlus.GenericDialog.getNextImage()
PlotMaker.getSourceImage()
Returns the ImagePlus used to generate the profile plots.Plot.makeHighResolution
(String title, float scale, boolean antialiasedText, boolean showIt) Creates a new high-resolution plot by scaling it and displays that plot if showIt is true.Modifier and TypeMethodDescriptionvoid
Roi.abortModification
(ImagePlus imp) Aborts constructing or modifying the roi (called by the ImageJ class on escape)void
Adds an image to the dialog.void
Adds a point to this PointRoi.void
PointRoi.addUserPoint
(ImagePlus imp, double ox, double oy) void
Plots a histogram using the specified title, number of bins and histogram range.void
HistogramPlot.draw
(ImagePlus imp, ImageStatistics stats) Draws the histogram using the specified title and ImageStatistics.void
Plots a histogram using the specified title and number of bins.void
Fills all the ROIs in this overlay with 'foreground' after clearing the the image to 'background' if it is not null.static String
ImageWindow.getImageSize
(ImagePlus imp) Roi.getInverse
(ImagePlus imp) Returns the inverted roi, or null if this is not an area roi or cannot be converted to a ShapeRoi.TextRoi.getMacroCode
(String cmd, ImagePlus imp) Used by the Recorder for recording the text tool.void
HistogramWindow.imageClosed
(ImagePlus imp) void
PlotWindow.imageClosed
(ImagePlus imp) For live plots, if either the source image or this image are closed, exit live modevoid
HistogramWindow.imageOpened
(ImagePlus imp) void
PlotWindow.imageOpened
(ImagePlus imp) void
HistogramWindow.imageUpdated
(ImagePlus imp) void
PlotWindow.imageUpdated
(ImagePlus imp) For live plots, this method is called if the source image content is changed.Measures the ROIs in this overlay on the specified image and returns the results as a ResultsTable.static GenericDialog
Obsolete, replaced by GUI.newNonBlockingDialog(String,ImagePlus).static GenericDialog
GUI.newNonBlockingDialog
(String title, ImagePlus imp) Returns a new NonBlockingGenericDialog with the given title if Prefs.nonBlockingFilterDialogs is 'true' and 'imp' is displayed, otherwise returns a GenericDialog.void
HistogramWindow.roiModified
(ImagePlus img, int id) void
PlotWindow.roiModified
(ImagePlus img, int id) For live plots, update the plot if the ROI of the source image changesvoid
RoiListener.roiModified
(ImagePlus imp, int id) void
void
Sets the ImagePlus associated with this ROI.void
Plot.setImagePlus
(ImagePlus imp) Sets the ImagePlus where the plot will be displayed.void
Roi.setPosition
(ImagePlus imp) Sets the position of this ROI based on the stack position of the specified image.static boolean
GUI.showCompositeAdvisory
(ImagePlus imp, String title) void
HistogramWindow.showHistogram
(ImagePlus imp, int bins) Draws the histogram using the specified title and number of bins.void
HistogramWindow.showHistogram
(ImagePlus imp, int bins, double histMin, double histMax) Draws the histogram using the specified title, number of bins and histogram range.void
HistogramWindow.showHistogram
(ImagePlus srcImp, ImageStatistics stats) Draws the histogram using the specified title and ImageStatistics.void
Roi.startPaste
(ImagePlus clipboard) void
ImageWindow.updateImage
(ImagePlus imp) static void
Overlay.updateTableOverlay
(ImagePlus imp, int first, int last, int tableSize) Updates overlays created by the particle analyzer after rows are deleted from the Results table.ModifierConstructorDescriptionEllipseRoi
(int sx, int sy, ImagePlus imp) FreehandRoi
(int sx, int sy, ImagePlus imp) HistogramWindow
(HistogramPlot plot, ImagePlus srcImp) HistogramWindow
(ImagePlus imp) Displays a histogram using the title "Histogram of ImageName".HistogramWindow
(String title, ImagePlus imp, int bins) Displays a histogram using the specified title and number of bins.HistogramWindow
(String title, ImagePlus imp, int bins, double histMin, double histMax) Displays a histogram using the specified title, number of bins and histogram range.HistogramWindow
(String title, ImagePlus imp, int bins, double histMin, double histMax, int yMax) Displays a histogram using the specified title, number of bins, histogram range and yMax.HistogramWindow
(String title, ImagePlus imp, ImageStatistics stats) Displays a histogram using the specified title and ImageStatistics.ImageCanvas
(ImagePlus imp) ImageWindow
(ImagePlus imp) ImageWindow
(ImagePlus imp, ImageCanvas ic) Deprecated.replaced by Line(int, int, int, int)Starts the process of creating a new user-generated straight line selection.Deprecated.Starts the process of creating a user-defined OvalRoi.Plot
(ImagePlus imp, InputStream is) Constructs a new plot from an InputStream and closes the stream.PlotCanvas
(ImagePlus imp) Creates a new PlotCanvasPlotWindow
(ImagePlus imp, Plot plot) Creates a PlotWindow from a given ImagePlus with a Plot object.Creates a new PointRoi using the specified screen coordinates.PolygonRoi
(int[] xPoints, int[] yPoints, int nPoints, ImagePlus imp, int type) Deprecated.PolygonRoi
(int sx, int sy, ImagePlus imp) Starts the process of creating a new user-generated polygon or polyline ROI.ProfilePlot
(ImagePlus imp) ProfilePlot
(ImagePlus imp, boolean averageHorizontally) Deprecated.Starts the process of creating a user-defined rectangular Roi, where sx and sy are the starting screen coordinates.Starts the process of creating a user-defined rectangular Roi, where sx and sy are the starting screen coordinates.RotatedRectRoi
(int sx, int sy, ImagePlus imp) StackWindow
(ImagePlus imp) StackWindow
(ImagePlus imp, ImageCanvas ic) -
Uses of ImagePlus in ij.io
Modifier and TypeMethodDescriptionOpener.deserialize
(byte[] bytes) Deserialize a byte array that was serialized using the FileSaver.serialize().FileOpener.open
(boolean show) Obsolete, replaced by openImage() and open().FileOpener.openImage()
Opens the image and returns it has an ImagePlus object.Opens, but does not display, the specified image file and returns an ImagePlus object object if successful, or returns null if the file is not in a supported format or is not found.Open the nth image of the specified tiff stack.Attempts to open the specified file as a tiff, bmp, dicom, fits, pgm, gif or jpeg image.Opener.openTempImage
(String directory, String name) Opener.openTextImage
(String dir, String name) Opens the specified text file as a float image.Opener.openTiff
(InputStream in, String name) Attempts to open the specified inputStream as a TIFF, returning an ImagePlus object if successful.Opens the nth image of the specified TIFF stack.Attempts to open the specified file as a tiff.Opener.openTiffStack
(FileInfo[] info) Attemps to open a tiff file as a stack.Attempts to open the specified url as a tiff, zip compressed tiff, dicom, gif or jpeg.static ImagePlus
Opener.openUsingBioFormats
(String path) Opens an image file using the Bio-Formats plugin.static ImagePlus
Opener.openUsingImageIO
(String path) Opener.openWithHandleExtraFileTypes
(String path, int[] fileTypes) Opens a single TIFF or DICOM contained in a ZIP archive, or a ZIPed collection of ".roi" files created by the ROI manager.Modifier and TypeMethodDescriptionstatic void
Opener.convertGrayJpegTo8Bits
(ImagePlus imp) Converts the specified RGB image to 8-bits if the 3 channels are identical.static String
Opener.getLoadRate
(double time, ImagePlus imp) static byte[][]
FileSaver.getOverlay
(ImagePlus imp) static String
static boolean
static boolean
static boolean
Always returns true.void
FileOpener.revertToSaved
(ImagePlus imp) Restores the original version of the specified image.void
FileSaver.saveDisplayRangesAndLuts
(ImagePlus imp, FileInfo fi) -
Uses of ImagePlus in ij.macro
Modifier and TypeMethodDescriptionstatic ImagePlus
Interpreter.getBatchModeImage
(int id) static ImagePlus
Interpreter.getLastBatchModeImage()
Interpreter.runBatchMacro
(String macro, ImagePlus imp) Runs Process/Batch/ macros.Modifier and TypeMethodDescriptionstatic void
Interpreter.activateImage
(ImagePlus imp) static void
Interpreter.addBatchModeImage
(ImagePlus imp) static void
Interpreter.removeBatchModeImage
(ImagePlus imp) Interpreter.runBatchMacro
(String macro, ImagePlus imp) Runs Process/Batch/ macros. -
Uses of ImagePlus in ij.measure
Methods in ij.measure with parameters of type ImagePlusModifier and TypeMethodDescriptionvoid
Disables the density calibation if the specified image has a differenent bit depth.void
Constructors in ij.measure with parameters of type ImagePlusModifierConstructorDescriptionCalibration
(ImagePlus imp) Constructs a new Calibration object using the default values. -
Uses of ImagePlus in ij.plugin
Modifier and TypeClassDescriptionclass
This plugin reads BMP files.class
This plugin decodes DICOM files.class
Opens and displays FITS images.class
This plugin opens GIFs and Animated GIFs.class
Opens NIH Image look-up tables (LUTs), 768 byte binary LUTs (256 reds, 256 greens and 256 blues), LUTs in text format, or generates the LUT specified by the string argument passed to the run() method.class
This plugin opens PxM format images.Modifier and TypeMethodDescriptionScreenGrabber.captureImage()
Captures the active image window and returns it as an ImagePlus.ScreenGrabber.captureScreen()
Captures the entire screen and returns it as an ImagePlus.Concatenator.concatenate
(ImagePlus[] ims, boolean keepIms) Concatenates two or more images or stacks.Concatenator.concatenate
(ImagePlus imp1, ImagePlus imp2, boolean keep) Concatenate two images or stacks.Concatenator.concatenateHyperstacks
(ImagePlus[] images, String newTitle, boolean keep) Obsolete, replaced by concatenate(images,keep) and Concatenator.run(images).RGBStackMerge.createComposite
(int w, int h, int d, ImageStack[] stacks, boolean keep) Deprecated; replaced by mergeChannels().Returns a copy the current image or stack slice, cropped if there is a selection.static ImagePlus
Performs a forward FHT transform.static ImagePlus
GelAnalyzer.getGelImage()
static ImagePlus
Orthogonal_Views.getImage()
AVI_Reader.getImagePlus()
Returns the ImagePlus opened by run().ZProjector.getProjection()
Retrieve results of most recent projection operation.Profiler.getSourceImage()
ZAxisProfiler.getSourceImage()
Orthogonal_Views.getXZImage()
Orthogonal_Views.getYZImage()
GroupedZProjector.groupZProject
(ImagePlus imp, int method, int groupSize) static ImagePlus
Performs an inverse FHT transform.static ImagePlus
CompositeConverter.makeComposite
(ImagePlus imp) MontageMaker.makeMontage2
(ImagePlus imp, int columns, int rows, double scale, int first, int last, int inc, int borderWidth, boolean labels) Creates a montage and returns it as an ImagePlus.static ImagePlus
SubHyperstackMaker.makeSubhyperstack
(ImagePlus input, String cString, String zString, String tString) static ImagePlus
SubHyperstackMaker.makeSubhyperstack
(ImagePlus input, List<Integer> cList, List<Integer> zList, List<Integer> tList) SubstackMaker.makeSubstack
(ImagePlus imp, String userInput) static ImagePlus
RGBStackMerge.mergeChannels
(ImagePlus[] images, boolean keepSourceImages) RGBStackMerge.mergeHyperstacks
(ImagePlus[] images, boolean keep) static ImagePlus
Opens an AVI file as a stack in memory or a virtual stack.static ImagePlus
Opens the images in the specified directory as a stack.static ImagePlus
Opens the images in the specified directory as a widthxheight stack.static ImagePlus
Opens the images in the specified directory as a stack.static ImagePlus
Opens the image at 'filePath' using the format specified by 'fi'.static ImagePlus
Opens all the images in the specified directory as a stack, using the format specified by 'fi'.static ImagePlus
Raw.openAllVirtual
(String directory, FileInfo fi) Opens all the images in the specified directory as a virtual stack, using the format specified by 'fi'.FolderOpener.openFolder
(String path) Opens the images in the specified directory as a stack.static ImagePlus
AVI_Reader.openVirtual
(String path) Opens an AVI file as a virtual stack.static ImagePlus
FileInfoVirtualStack.openVirtual
(String path) Opens the specified tiff file as a virtual stack.static ImagePlus
Returns a scaled copy of this image or ROI, where the 'options' string can contain 'none', 'bilinear'.static ImagePlus
Changes the order of the channels in a hyperstack.Concatenator.run()
Displays a dialog requiring user to choose images and returns ImagePlus of concatenated images.static ImagePlus
Concatenates two or more images, stacks or hyperstacks.static ImagePlus
Concatenates two images, stacks or hyperstacks.static ImagePlus
Concatenates three images, stacks or hyperstacks.static ImagePlus
Concatenates four images, stacks or hyperstacks.static ImagePlus
Concatenates five images, stacks or hyperstacks.Returns a copy of the image, stack or hyperstack contained in the specified ImagePlus.Returns a new stack containing a subrange of the specified stack.Returns a new hyperstack containing a possibly reduced version of the input image.static ImagePlus
Performs arithmetic options on two images and returns the result, where 'operation' ("add","subtract", "multiply","divide", "and", "or", "xor", "min", "max", "average", "difference" or "copy") specifies the operation.static ImagePlus
Converts the images in 'images' to a stack, using the default settings ("copy center" and "titles as labels").static ImagePlus
Extracts selected slices from a stack to make a new substack.static ImagePlus
Performs projection on the entire stack using the specified method and returns the result, where 'method' is "avg", "min", "max", "sum", "sd" or "median".static ImagePlus
Performs projection using the specified method and stack range, and returns the result, where 'method' is "avg", "min", "max", "sum", "sd" or "median".Binner.shrinkHyperstackZ
(ImagePlus imp, int zshrink) static ImagePlus[]
Splits the specified image into separate channels.static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and display mode ("Composite").static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t, String mode) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and the specified display mode ("composite", "color" or "grayscale").static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t, String order, String mode) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames.Modifier and TypeMethodDescriptionstatic void
void
Deprecated.replaced by run(String,ImagePlus,ImagePlus)Concatenator.concatenate
(ImagePlus[] ims, boolean keepIms) Concatenates two or more images or stacks.Concatenator.concatenate
(ImagePlus imp1, ImagePlus imp2, boolean keep) Concatenate two images or stacks.Concatenator.concatenateHyperstacks
(ImagePlus[] images, String newTitle, boolean keep) Obsolete, replaced by concatenate(images,keep) and Concatenator.run(images).void
RGBStackConverter.convertHyperstack
(ImagePlus imp, ImagePlus imp2) void
StackEditor.convertStackToImages
(ImagePlus imp) static void
RGBStackConverter.convertToRGB
(ImagePlus imp) Converts the specified multi-channel (composite) image to RGB.static void
Clipboard.copyToSystem
(ImagePlus imp) Copies the contents of the specified image, or selection, to the system clicpboard.static ByteProcessor
Thresholder.createMask
(ImagePlus imp) Returns an 8-bit binary (0 and 255) threshold mask that has the same dimensions as this image.Returns a copy the current image or stack slice, cropped if there is a selection.void
static void
void
static void
Version of filter() that accepts an ImagePlus for the filter.static void
FFT.filter
(ImagePlus imp, ImageProcessor filter) Does frequency domain fitering of the speciified imagevoid
static ImagePlus
Performs a forward FHT transform.static ImageStack
ChannelSplitter.getChannel
(ImagePlus imp, int c) Returns, as an ImageStack, the specified channel, where 'c' must be greater than zero and less than or equal to the number of channels in the image.ImageInfo.getExifData
(ImagePlus imp) static String[]
Extracts the original FITS header from the Properties object of the ImagePlus image (or from the current slice label in the case of an ImageStack) and returns it as an array of String objects representing each card.ImageInfo.getImageInfo
(ImagePlus imp) static Plot
Returns a Plot of the selection mean gray value versus slice number.static Plot
Returns a Plot of the selection mean versus slice number for the specified hyperstack, where 'options' can be "time" or "z-axis".GroupedZProjector.groupZProject
(ImagePlus imp, int method, int groupSize) void
EventListener.imageClosed
(ImagePlus imp) void
Orthogonal_Views.imageClosed
(ImagePlus imp) void
EventListener.imageOpened
(ImagePlus imp) void
Orthogonal_Views.imageOpened
(ImagePlus imp) void
EventListener.imageSaved
(ImagePlus imp) void
EventListener.imageUpdated
(ImagePlus imp) void
Orthogonal_Views.imageUpdated
(ImagePlus imp) static void
void
static ImagePlus
Performs an inverse FHT transform.static boolean
Orthogonal_Views.isOrthoViewsImage
(ImagePlus imp) static void
HyperStackMaker.labelHyperstack
(ImagePlus imp) static ImagePlus
CompositeConverter.makeComposite
(ImagePlus imp) void
MontageMaker.makeMontage
(ImagePlus imp) void
MontageMaker.makeMontage
(ImagePlus imp, int columns, int rows, double scale, int first, int last, int inc, int borderWidth, boolean labels) Creates a montage and displays it.MontageMaker.makeMontage2
(ImagePlus imp, int columns, int rows, double scale, int first, int last, int inc, int borderWidth, boolean labels) Creates a montage and returns it as an ImagePlus.static ImagePlus
SubHyperstackMaker.makeSubhyperstack
(ImagePlus input, String cString, String zString, String tString) static ImagePlus
SubHyperstackMaker.makeSubhyperstack
(ImagePlus input, List<Integer> cList, List<Integer> zList, List<Integer> tList) SubstackMaker.makeSubstack
(ImagePlus imp, String userInput) static void
static ImagePlus
RGBStackMerge.mergeChannels
(ImagePlus[] images, boolean keepSourceImages) RGBStackMerge.mergeHyperstacks
(ImagePlus[] images, boolean keep) static void
FFT.multiply
(ImagePlus imp, ImageProcessor filter) Multiplies a Fourier domain image by a filterstatic void
static void
void
void
StackReducer.reduceHyperstack
(ImagePlus imp, int factor, boolean reduceSlices) void
StackReducer.reduceStack
(ImagePlus imp, int factor) static ImagePlus
Returns a scaled copy of this image or ROI, where the 'options' string can contain 'none', 'bilinear'.void
EventListener.roiModified
(ImagePlus img, int id) Straightener.rotateLine
(ImagePlus imp, int width) static ImagePlus
Changes the order of the channels in a hyperstack.static ImagePlus
Concatenates two or more images, stacks or hyperstacks.static ImagePlus
Concatenates two images, stacks or hyperstacks.static ImagePlus
Concatenates three images, stacks or hyperstacks.static ImagePlus
Concatenates four images, stacks or hyperstacks.static ImagePlus
Concatenates five images, stacks or hyperstacks.Returns a copy of the image, stack or hyperstack contained in the specified ImagePlus.Returns a new stack containing a subrange of the specified stack.Returns a new hyperstack containing a possibly reduced version of the input image.static ImagePlus
Performs arithmetic options on two images and returns the result, where 'operation' ("add","subtract", "multiply","divide", "and", "or", "xor", "min", "max", "average", "difference" or "copy") specifies the operation.static ImagePlus
Converts the images in 'images' to a stack, using the default settings ("copy center" and "titles as labels").static ImagePlus
Extracts selected slices from a stack to make a new substack.static ImagePlus
Performs projection on the entire stack using the specified method and returns the result, where 'method' is "avg", "min", "max", "sum", "sd" or "median".static ImagePlus
Performs projection using the specified method and stack range, and returns the result, where 'method' is "avg", "min", "max", "sum", "sd" or "median".void
static String
Saves the specified image in GIF format or as an animated GIF if the image is a stack.static String
Thread-safe method.static void
Saves the specified image as a sequence of images.static void
static void
void
Explicitly set image to be projected.double
RoiEnlarger.showDialog
(ImagePlus imp, double pixels) Binner.shrinkHyperstackZ
(ImagePlus imp, int zshrink) void
Changes the dimension order of a 4D or 5D stack from the specified order (CTZ, ZCT, ZTC, TCZ or TZC) to the XYCZT order used by ImageJ.static ImagePlus[]
Splits the specified image into separate channels.Straightener.straighten
(ImagePlus imp, Roi roi, int width) Straightener.straightenLine
(ImagePlus imp, int width) Straightener.straightenStack
(ImagePlus imp, Roi roi, int width) void
ContrastEnhancer.stretchHistogram
(ImagePlus imp, double saturated) static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and display mode ("Composite").static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t, String mode) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and the specified display mode ("composite", "color" or "grayscale").static ImagePlus
HyperStackConverter.toHyperStack
(ImagePlus imp, int c, int z, int t, String order, String mode) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames.static void
Zoom.toSelection
(ImagePlus imp) static void
Converts the specified hyperstack into a stack.static void
void
PNG_Writer.writeImage
(ImagePlus imp, String path, int transparentIndex) ModifierConstructorDescriptionConstructs a HyperStackReducer using the specified source image.ZProjector
(ImagePlus imp) Construction of ZProjector with image to be projected. -
Uses of ImagePlus in ij.plugin.filter
Fields in ij.plugin.filter declared as ImagePlusMethods in ij.plugin.filter that return ImagePlusModifier and TypeMethodDescriptionDuplicater.duplicateStack
(ImagePlus imp, String newTitle) Deprecated.Duplicater.duplicateSubstack
(ImagePlus imp, String newTitle, int first, int last) Deprecated.ParticleAnalyzer.getOutputImage()
Returns the "Outlines", "Masks", "Elipses" or "Count Masks" image, or null if "Nothing" is selected in the "Show:" menu.static ImagePlus
Analyzer.getRedirectImage
(ImagePlus cimp) Returns the image selected in the "Redirect To:" popup menu of the Analyze/Set Measurements dialog, or null if "None" is selected, the image was not found or the image is not the same size ascurrentImage
.Methods in ij.plugin.filter with parameters of type ImagePlusModifier and TypeMethodDescriptionvoid
Uses extracts a set of coordinate pairs from a digitized line graph.boolean
Performs particle analysis on the specified image.boolean
ParticleAnalyzer.analyze
(ImagePlus imp, ImageProcessor ip) Performs particle analysis on the specified ImagePlus and ImageProcessor.void
Calibrate an image with the function type defined previously.void
Filler.drawLabel
(ImagePlus imp, ImageProcessor ip, int count, Rectangle r) Duplicater.duplicateStack
(ImagePlus imp, String newTitle) Deprecated.Duplicater.duplicateSubstack
(ImagePlus imp, String newTitle, int first, int last) Deprecated.Info.getImageInfo
(ImagePlus imp, ImageProcessor ip) Deprecated.static ImagePlus
Analyzer.getRedirectImage
(ImagePlus cimp) Returns the image selected in the "Redirect To:" popup menu of the Analyze/Set Measurements dialog, or null if "None" is selected, the image was not found or the image is not the same size ascurrentImage
.static Roi
Returns a selection created from the thresholded pixels in the specified image, or null if there are no thresholded pixels.void
void
XYWriter.saveXYCoordinates
(ImagePlus imp) static void
Analyzer.setRedirectImage
(ImagePlus imp) Set the "Redirect To" image.int
int
int
int
int
int
int
int
Deprecated.int
Prepare for processing; also called at the very end with argument 'final' to show any newly created output image.int
int
int
int
int
int
Method to return types supportedint
int
int
Deprecated.int
int
int
int
Method to return types supportedint
int
This method is called once when the filter is loaded.int
int
Setup of the PlugInFilter.int
int
int
int
int
int
int
int
int
int
int
Method to return types supportedint
Deprecated.int
int
BackgroundSubtracter.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
Binary.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) boolean
Calibrator.showDialog
(ImagePlus imp) int
Convolver.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
EDM.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) Called by the PlugInFilterRunner after setup.int
ExtendedPlugInFilter.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) This method is called aftersetup(arg, imp)
unless theDONE
flag has been set.int
GaussianBlur.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) Ask the user for the parametersint
ImageMath.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
MaximumFinder.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
RankFilters.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
Rotator.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
StackLabeler.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
Translator.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) int
UnsharpMask.showDialog
(ImagePlus imp, String command, PlugInFilterRunner pfr) Ask the user for the parametersvoid
Deprecated; replaced by ij.plugin.ChannelSplitter.void
AVI_Writer.writeImage
(ImagePlus imp, String path, int compression, int jpegQuality) Writes an ImagePlus (stack) as AVI file.Constructors in ij.plugin.filter with parameters of type ImagePlusModifierConstructorDescriptionConstructs a new Analyzer using the specified ImagePlus object and the current measurement options and default results table.Analyzer
(ImagePlus imp, int measurements, ResultsTable rt) Construct a new Analyzer using an ImagePlus object and private measurement options and a ResultsTable.Analyzer
(ImagePlus imp, ResultsTable rt) Construct a new Analyzer using an ImagePlus object and a ResultsTable. -
Uses of ImagePlus in ij.plugin.frame
Methods in ij.plugin.frame that return ImagePlusModifier and TypeMethodDescriptionSyncWindows.getImageFromVector
(int n) Get ImagePlus from Windows-Vector vwins.Methods in ij.plugin.frame with parameters of type ImagePlusModifier and TypeMethodDescriptionvoid
Adds the specified ROI to the list.int
SyncWindows.getIndexOfImage
(ImagePlus image) Get index of "image" in vector of synchronized windows, if image is in vector.void
Recorder.imageClosed
(ImagePlus imp) void
SyncWindows.imageClosed
(ImagePlus imp) Implementation of ImageListener interface: update window list, if image is opened or closedvoid
ThresholdAdjuster.imageClosed
(ImagePlus imp) void
Recorder.imageOpened
(ImagePlus imp) void
SyncWindows.imageOpened
(ImagePlus imp) Implementation of ImageListener interface: update window list, if image is opened or closedvoid
ThresholdAdjuster.imageOpened
(ImagePlus imp) void
Recorder.imageUpdated
(ImagePlus imp) void
SyncWindows.imageUpdated
(ImagePlus imp) void
ThresholdAdjuster.imageUpdated
(ImagePlus imp) void
RoiManager.moveRoisToOverlay
(ImagePlus imp) Moves all the ROIs to the specified image's overlay.RoiManager.multiMeasure
(ImagePlus imp) This method measures the selected ROIs, or all ROIs if none are selected, on all the slices of a stack and returns a ResultsTable arranged with one row per slice.static ResultsTable
RoiManager.multiMeasure
(ImagePlus imp, Roi[] rois, boolean appendResults) boolean
RoiManager.runCommand
(ImagePlus imp, String cmd) Using the specified image, runs the ROI Manager "Add", "Add & Draw", "Update", "Delete", "Measure", "Draw", "Show All", "Show None", "Fill", "Deselect", "Select All", "Combine", "AND", "XOR", "Split", "Sort" or "Multi Measure" command.void
Assigns the ROI at the specified index to 'imp'.void
RoiManager.selectAndMakeVisible
(ImagePlus imp, int index) void
void
RoiManager.setEditMode
(ImagePlus imp, boolean editMode) -
Uses of ImagePlus in ij.plugin.tool
Methods in ij.plugin.tool with parameters of type ImagePlusModifier and TypeMethodDescriptionvoid
PlugInTool.mouseClicked
(ImagePlus imp, MouseEvent e) void
ArrowTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
BrushTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
OverlayBrushTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
PixelInspectionTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
PlugInTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
RoiRotationTool.mouseDragged
(ImagePlus imp, MouseEvent e) void
PlugInTool.mouseEntered
(ImagePlus imp, MouseEvent e) void
PlugInTool.mouseExited
(ImagePlus imp, MouseEvent e) void
PlugInTool.mouseMoved
(ImagePlus imp, MouseEvent e) void
ArrowTool.mousePressed
(ImagePlus imp, MouseEvent e) void
BrushTool.mousePressed
(ImagePlus imp, MouseEvent e) void
OverlayBrushTool.mousePressed
(ImagePlus imp, MouseEvent e) void
PixelInspectionTool.mousePressed
(ImagePlus imp, MouseEvent e) void
PlugInTool.mousePressed
(ImagePlus imp, MouseEvent e) void
RoiRotationTool.mousePressed
(ImagePlus imp, MouseEvent e) void
ArrowTool.mouseReleased
(ImagePlus imp, MouseEvent e) void
BrushTool.mouseReleased
(ImagePlus imp, MouseEvent e) void
OverlayBrushTool.mouseReleased
(ImagePlus imp, MouseEvent e) void
PlugInTool.mouseReleased
(ImagePlus imp, MouseEvent e) void
RoiRotationTool.mouseReleased
(ImagePlus imp, MouseEvent e) -
Uses of ImagePlus in ij.process
Methods in ij.process that return ImagePlusModifier and TypeMethodDescriptionConverts a Lab stack into an RGB image.Converts an RGB image into a Lab stack.Methods in ij.process with parameters of type ImagePlusModifier and TypeMethodDescriptionConverts a Lab stack into an RGB image.Converts an RGB image into a Lab stack.void
Constructors in ij.process with parameters of type ImagePlusModifierConstructorDescriptionImageConverter
(ImagePlus imp) Constructs an ImageConverter based on an ImagePlus object.StackConverter
(ImagePlus imp) StackStatistics
(ImagePlus imp) Creates a StackStatistics object from a stack, using 256 histogram bins and the entire stack pixel value range.StackStatistics
(ImagePlus imp, int nBins, double xMin, double xMax) Creates a StackStatistics object from a stack, using the specified histogram bin count and x-axis range (pixel value tange). -
Uses of ImagePlus in ij.util