Confocal microscopy is widely used by biologists to acquire high-resolution three- or four-dimensional images of fluorescently labeled specimens. Visualization of confocal data is usually done using maximal intensity projections, which often cause loss of 3D structural information. Several commercially available software packages allow for more sophisticated visualization methods, but these packages are expensive, relatively slow to use, and only limited brighter signals can be visualized. To address these issues, we have developed FluoRender, a new multi-channel volume rendering application that is optimized for confocal datasets, which we are distributing freely (http://www.fluorender.com). We also developed several plugins/macros for solving biological imaging problems in ImageJ: 3D/4D brightness equalization, pre-image processing for 4D cell tracking, 3D reconstruction of paraffin slices, automate-cell counting function and automate-brightness measurement along with elongated cells.
University of Utah, Scientific computing and imaging institute (SCI), Neurobiology & Anatomy
Tuesday, November 25, 2014
Pacific Hall 3500
Presented by KIBM