IMAGE user guide (original) (raw)

Throughout the guide, internal links are displayed in gray (e.g., Part IV ImageJ User Interface). Links to external URLs, such as the ImageJ website, http://imagej.nih.gov/ij/, are displayed in dark blue. ImageJ commands are typed in sans serif typeface with respective shortcut keys flanked by square brackets (e.g.: Image Duplicate.. . [D]). As explained in Using Keyboard Shortcuts, this notation implies Shift-modifiers (i.e., [D] means pressing Shift D , [d] only the D key) and assumes that Require control key for shortcuts in Edit Options Misc.. . is unchecked. Note that references to the Ctrl key include the Cmd key of Macintosh keyboards. Useful tips and reminders are placed in 'Noteworthy notes' numbered with upper case roman numerals (e.g., I Frontmost Window and Window Activation). The full list of these notes is available on page viii. Filenames, directories and file extensions are typed in monospaced font marked by a related icon, e.g., file StartupMacros.txt in folder /Applications/ImageJ/macros/. Macro functions and code snippets are typed in monospaced font, e.g., resetMinAndMax(). Scripts and macros are numbered with arabic numerals included in parentheses (e.g., (2) Replace Red with Magenta.ijm (Using Image Color Channels.. .) on page 17) and typeset with the same syntax markup provided by the Fiji Script Editor. The full list of macro listings is available on page ix. Selected highlights of version 1.46r are listed on page vii and flagged with colored marginal notes. These should be interpreted as: New in IJ 1.46r A new feature implemented in ImageJ 1.46r. Improved in IJ 1.46r A routine that has been improved since previous versions. Typically, a faster or more precise algorithm, a command with better usability, or a task that has been extended to more image types. Changed in IJ 1.46r A pre-existing command that has been renamed or moved to a different menu location in ImageJ 1.46r. Part I Getting Started This part provides basic information on ImageJ installation, troubleshooting and update strategies. It discusses Fiji and ImageJ2 as well as third-party software related to ImageJ. Being impossible to document all the capabilities of ImageJ without exploring technical aspects of image processing, external resources allowing willing readers to know more about digital signal processing are also provided.