Calendar

September 9, 2008
NCMIR's Mark Ellisman is giving a keynote lecture, "Brain Research in the Digital Age," at Neuroinformatics 2008 in Stockholm, Sweden.








Research Portals

Affiliated Sites




National Center for Microscopy and Imaging Research (NCMIR)
Center for Research in
Biological Systems
Basic Science Building, Room 1000
University of California, San Diego
9500 Gilman Drive
Dept. Code 0608
La Jolla, CA 92093-0608 USA
Voice: (858) 534-0276
Fax: (858) 534-7497

ImageJ Mosaic Plug-ins

The set of ImageJ plugins included in this distribution form the mosaic processing software we use at NCMIR to process our large-scale brain maps and mosaics. The reason the software exists as ImageJ plugins is largely due to legacy and uses very little of the ImageJ functionality. Instead, the plugins makes substantial use of the Java Advanced Imaging and Image I/O libraries for most of the i mage processing and file io. Consequently, image files created with the mosaic processing pipeline generally are not fully compatible with the built-in functionality of ImageJ.

Basic Requirements: ImageJ, Java1.5+ (Developed and tested with JDK 1.5.0.06), Java Advanced Imaging 1.1.2, Java Advanced Imaging Image I/O Tools 1.0_01

README

Source Code Distribution

To checkout the module from CVS issue the following commands:

% cvs -d :pserver:anonymous@birkdale.ucsd.edu:/cvs login
(hit return)
% cvs -d :pserver:anonymous@birkdale.ucsd.edu:/cvs co ImageJ-mosaic