Data Browser

Latest Version
4.1.0 (2009 October 21)

The Data Browser is an ImageJ plugin that facilitates quick browsing of multichannel, multi-focal plane time course datasets. It is integrated with the Bio-Formats importer plugin—as well as ImageJ's built-in hyperstack and virtual stack support—to provide multidimensional visualization capabilities across space, time and channels.

Features

The primary goal of the Data Browser is to allow quick and easy visualization of large, multidimensional data within ImageJ. It supports data spanning multiple focal planes (Z), time points (T), and channels (C), and reads a subset of image planes from the data source into memory at one time, so that datasets larger than the available RAM can be browsed effectively. The Data Browser is similar to Joachim Walter's Image5D plugin, but was developed independently.

The Z, T and C positions are browsed by moving sliders labeled "Z-depth", "time", and "channel" respectively. The blue bars beneath each of the sliders show which image planes have been cached in memory, while the red bars indicate planes currently in the process of being cached. The "Animate" button begins cycling through the time axis at the current Z and C positions. The "Options" button displays a host of configuration parameters, such as dimensional axis ordering and planar caching preferences. The "Metadata" button displays the OME-XML metadata associated with the dataset.

The user can perform normal operations on the image (e.g., Process>Smooth), but they will only affect the currently visible image plane.

Language
Java
Installation and Usage
  1. Place in ImageJ plugins folder
  2. Next time you run ImageJ, a new LOCI submenu with several plugins will appear in the Plugins menu
  3. Choose Data Browser from the LOCI menu and select a file when prompted