![]() ![]() Used with two stacks, one is the source and the other the destination.Stack Inserter: “ Image/Stacks/Tools/Insert" Interleave is the reverse process and may be applied to two stacks at a time.Deinterleave will distribute slices between new stacks as indicated by the specified number of channels.(De)Interleave: “ Image/Stacks/Tools/DeInterleave” and “ /Interleave” If the two stacks contain a different number of slices, the shorter will have blank slices appended to the end so they are the same length.Stack Combine: “ Image/Stacks/Tools/Combine” For example, concatenating two 25-slice stacks would result in a 25-slice stack with two different time points at each slice. "Open as a 4D Image" option interprets separate stacks as belonging to a single 4D dataset.Stacks must be the same dimension and image type.Reversing stack: “ Image/Stacks/Tools/Reverse"Ĭoncatenate: “ Image/Stacks/Tools/Concatenate" Can do reverse operation with " Image/Stack/Tools/Montage to Stack", but will need to specify the number of rows and columns to ensure the correct number of slices.Ideal for generating a montage of a stack for a lab book.When using "Images to Stack", the original images will close once the stack is formed.If different sized images are used, you will be presented with options to make the size uniform. “ Images to Stack” requires images to be the same size.Stack to images/Images to stack: “ Image/Stacks/Stack to images” (Images to Stack…). Option to delete the slices from the original stack.Indicate a range or list of slices to include in new substack increments are possible.Select the slices to remove: “ Image/Stacks/Tools/Make substack” Indicate the first and last slices in the range to remove, as well as the increment of slices to remove between the first and last slices.Deletes the currently displayed slice in a stack.ĭeleting a number of slices: “ Image/Stacks/Tools/Slice remover”.Some of these functions are described below.ĭeleting a single slice: “ Image/Stacks/Delete Slice" Where $IJ_DIR (or %IJ_DIR% on Windows) is the path to your ImageJ installation.The slices in a stack can be manipulated in many ways. %IJ_DIR%\ImageJ-win64 =%IJ_DIR%\jars %IJ_DIR%\plugins %HOMEDRIVE%%HOMEPATH%\.plugins $IJ_DIR/Contents/MacOS/ImageJ-macosx =$IJ_DIR/jars:$IJ_DIR/plugins:$HOME/.plugins $IJ_DIR/ImageJ-linu圆4 =$IJ_DIR/jars:$IJ_DIR/plugins:$HOME/.plugins See the ImageJ web site's article Changing Location of Plugins Directory.įor ultimate control, ImageJ also provides support for manually configuring the list of plugin paths, similar to Java's classpath, using the system property. ![]() However, this can be overridden using the plugins.dir system property. The default folder is the plugins folder of the ImageJ installation. Power users may wish to configure exactly which folder(s) ImageJ scans for plugins. This is useful if you want to install some of your own plugins without affecting the system-wide ImageJ installation.Ĭonfiguring where ImageJ looks for plugins plugins folder in the current user's home folder. In addition to looking in the plugins folder of ImageJ itself, ImageJ also looks in the. See also the Installing 3rd party plugins guide. After running this command once and restarting ImageJ, the plugin will become available in ImageJ's Plugins menu. java then you typically must execute the Compile and Run command on the file to first compile it to a. class then it is usually enough to simply restart ImageJ after dropping the file into plugins. The plugin will consist of one or more files which must be downloaded and (typically) placed in ImageJ's plugins folder: In the meantime, to install a plugin manually, follow the plugin's installation instructions, if any. If the plugin you want is not distributed via an ImageJ update site, please encourage the plugin's maintainer to do so! Anyone can create a personal update site as well as additional dedicated update sites (for a particular plugin) hosted on, to easily share and maintain updated plugins. class files, see Installing plugins manually below.Īdvanced topics Installing plugins manually jar file, or as unpackaged directory with. If the plugin is not available via update site, but packaged as. Simply add the update site containing your plugins of interest, and they will be installed automatically for you. The ImageJ Updater is the best way to install and update plugins. Additional plugins available from various online sources, which must be manually installed.Plugins installable from an ImageJ update site.(nearly 1000 additional plugins as of this writing) Core Fiji plugins, bundled with the Fiji distribution of ImageJ.Core ImageJ plugins, bundled with the base ImageJ distribution.You can browse the list of available plugins. ![]()
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |