#ADD SCALE BAR IN IMAGEJ UPDATE#

Convert the image from 8-bit color to RGB with Image › Type › RGB color before adding the scale bar to get a white scale-bar on a pseudocolored image.Ĭheck the “ Label all slices” box to add a scale-bar to the whole stack. gray level 255) scale-bar will appear green. If you’ve used the “Green” LUT, then the “white” (i.e. “ Height” will determine how many pixels fat your bar will be. Change the “ Width in ***” value to something sensible (5, 10, 50 etc.).

Run the scale bar dialog via the “Add Scale Bar” plugin. Click OK.įirst, use the line ROI tool to draw a line with approximately the desired location and length. Do not check Global unless you want all your images to have this calibration.Enter the dimensions of the object/scale bar in the “ known distance” box and set the units in the “ Unit of length” box.Run the menu command Analyze › Set scale….Do not choose Edit › Draw after adding the line. Using the line selection tool, draw a line along the length of the feature or scale bar.If you know the size of a feature (for example, a previously applied scale bar) you can use this command to apply a calibration. In the new dialog, enter a value by which the receiving image has been scaled.In the “ from” drop-down box select the original image in the “ to” box, select the processed image.Open the image with the original calibration.There are three ways to reapply spatial calibration: manually via the Image › Properties dialog using the “Copy Pixel Size” plugin that applies pixel size of one image to a second image or with the “Set Scale” plugin.

#ADD SCALE BAR IN IMAGEJ UPDATE#

In this case, use the original file’s spatial calibration (located under Image › Properties) to update the Image › Properties values of the final, processed image. Sometimes the spatial calibration may be lost after applying an image processing function. The “ Microscope Scale” plugin is another alternative and can be customized using a drop-down box of objectives to apply spatial calibrations. Spatial calibration can also be found and set in the Image › Properties dialog. Then the calibration can be applied using Analyze › Set Scale ( see below). These settings include camera binning, frame size, objective, confocal zoom, etc. In the case that the files have no calibration, you can apply the calibration using images of a stage micrometer with the same settings as your experiment. Zeiss zvi’s exported as TIFFs) will lose their calibration information completely. Perkin Elmer) are not calibrated while some “exported” image files (e.g. However, it is important to keep in mind that some file formats (e.g. Some microscope models (e.g., Biorad PIC, and Zeiss LSM confocal image files) will use the zoom and objective magnification settings for internal calibration. Note that the units “um” will automatically change to “µm”. Spatial calibrationĪn image’s spatial calibration can be edited using Image › Properties. A standard size should be used for the scale bars on all images if possible to help avoid confusion. All images for publications should include a scale bar.

Add scale bar in imagej