BioJava aims to provide a comprehensive set of Java components for the rapid development of applications in Bioinformatics. It contains interfaces for representing Sequences, Features, and other important bioinformatics concepts. It can also read and write sequence data in a variety of common formats and communicate with Ensembl databases and with DAS and BioCorba servers.
The Bubbling Load Monitor (or "Bubblemon" for short) is a system load monitor for the GNOME panel. It looks like a vial containing water. The water level indicates how much (electronic) memory is in use. The color of the liquid indicates how much swap space is used. The amount of bubbles reflects the system CPU load. A message in a bottle indicates there is unread mail. A reed-like graph shows I/O load. On multi-core systems the CPU with the highest load will bubble in the middle, and the others on the sides, so it's possible to see how well load gets distributed between CPUs.
Cactus is a general, modular, parallel environment for solving systems of partial differential equations. The code has been developed over many years by a large international collaboration of numerical relativity and computational science research groups and can be used to provide a portable platform for solving any system of partial differential equations.
DINO is a realtime visualization program for structural biology data, including protein and nucleic-acid coordinates, molecular surfaces, electrostatic potentials, electron densities, surface topographs (from AFM), and MD trajectories. It supports PNG, PostScript and POVray (3.1g and megapov) output. Supported platforms are Linux/i386, Linux/PPC, IRIX, Sun, OSF1, and MacOS X.
EGO is a program to perform molecular dynamics simulations on parallel as well as on sequential computers. Supported parallel machines include the Hitachi SR8000, CRAY-T3E, IBM-SP2, Fujitsu VPP700, Parsytec-CC under PARIX, and inhomogeneous clusters of UNIX workstations under PVM or MPI. EGO also runs sequentially on any decent UNIX workstation, even Windows95/NT PC's (with a GNU-C compiler) can be used.
EtherApe is a GNOME/pcap-based etherman, interman, and "tcpman" clone. It displays network activity graphically. Active hosts are shown as circles of varying size, and traffic among them is shown as lines of varying width. It supports Ethernet, FDDI, Token Ring, ISDN, PPP, WLAN, and SLIP transports. It knows about VLANs, IP, IPv6, TCP, UDP, FTP, and a number of other protocols. Additional statistics windows will let you concentrate on protocols or nodes.
Flounder is a program to quickly visualize 4D data (x,y,z,t). It can produce isosurfaces, solid renderings, as well as 2D slices. Several data sets can be viewed simultaneously. Temporal data at a spatial location can be examined with output in several formats including PNG and GIF animations.
g2 is an easy to use, portable and powerful 2D graphics library. It provides a comprehensive set of functions for simultaneous generation of graphical output on different types of devices. The following devices are currently supported: Postscript, X11, FIG (xfig), PNG, and JPEG using the gd library, and Win32. g2 is written in C (ANSI) and additionally has Fortran, Perl, and Python interfaces.