My favorite tools

Since I am working all the time on my Linux Box, I tend to prefer to use only softwares which are relased under the GNU General Public License. A big majority of the following softwares belong to this category.

Visualization

Computer Vision

For 2 and 3D visualization, I use VTK.
- The Visualization Toolkit textbook
- The Visualization Toolkit User's Guide

Computer Graphics

is a volume rendering tool for scientific visualization and medical imaging. It features powerful Multi-dimensional transfer functions that are chosen through a set of very intelligent Direct Manipulation Widgets. It creates stunning images.
I am starting to use POVRay.

Programming

For writting scripts: the basic Tcl/Tk, and the powerful object-oriented
I often use the famous Concurrent Versions System CVS to manage concurrent versions of my code, and articles co-authored.
Doxygen is a documentation system for C++, Java, IDL (Corba, Microsoft and KDE-DCOP flavors) and C.
GVD, the GNU Visual Debugger, is an extensible graphical debugger licensed under the GNU General Public License and written in Ada using GNAT and the GtkAda graphical toolkit.
CMake is a cross-platform, open-source make system. CMake is used to control the software compilation process using simple platform and compiler independent configuration files.
Qt is a multiplatform, C++ application framework that lets developers write one application that will run -- natively -- on Windows, Linux/Unix, Mac OS X, and embedded Linux with a simple recompile. There is a free edition under the GPL license which includes Qt Designer, a full-fledged GUI builder.

Math

The FFTW library is a C subroutine library for computing the Discrete Fourier Transform in one or more dimensions.

Medical Imaging

Many dicom tools are referenced on the page idoimaging. As they say: "This is the site for people who work with medical imaging files".
Dicom2 (by Sebastien Barre) is a FREE command-line driven program which allows you to convert medical images and DICOM files to various other formats, while optionally performing some rudimentary image processing tasks. I use it all the time.
VTK has now a class vtkDICOMImageReader which reads dicom files.

Writing

In my tex/latex documents I save space by converting my images in postscript with jpeg2ps. jpeg2ps is a utility for converting JPEG images to compressed PostScript Level 2 or 3 files (without uncompressing the images). The JPEG data is simply wrapped with PostScript which yields considerably smaller PS files.

Web

I've decided to implement my web pages with html, Cascading Style Sheets (CSS), javascript (ECMAscript) and the Document Object Model (DOM). I've later realized that some people are still using old versions of common browsers (ex: Netscape 4.x). I apologize in advance for making the content of this site unavailable to this people.
I use Awstats for reading the statistics of connection on my web-page. It is a Free realtime logfile analyzer for advanced web statistics, easy to use and parametrize. For an example, look at my Statistics page.
I use latex2html to produce output in html of my articles. It enables me to create content for my web pages with very small changes in my latex files.