Achilles Life Simulator
Watch a simulation of artificial life and evolution
An Anarchist FAQ
Exhaustive exploration of Anarchist theory and practice
Adun
Biomolecular Simulator
Aghermann
Manage EEG recordings, view and score EDF files, and simulate Process S
Edfhed
EDF file header editor

AlgoBox
Algorithm creation and execution helper
AltOS UI
View and log downlink data from Altus Metrum products
MicroPeak
View and log data from MicroPeak altimeters
TeleGPS
View and log data from TeleGPS tracking devices

Amide
analysis tool for medical images
Anki
An intelligent spaced-repetition memory training program
Auto Multiple Choice
Manage multiple choice questionnaires, with automatic marking from papers' scans

Avogadro
Molecular Graphics and Modelling System
AWeather
Advanced weather reporting program
BASIC-256
Learn BASIC in an environment designed for young children
Bauble
An application for managing botanical collections
BibleTime
An easy to use bible study tool

Biogenesis
artificial life program that simulates the processes involved in the evolution of organisms

BKchem
Chemical drawing tool
Blinken
A memory enhancement game
Boat Scenario
Race scenario drawing tool

Cadabra
Computer algebra system for field theory problems

Cantor
KDE Frontend to Mathematical Software
CaRMetal
CaRMetal interactive geometry

Celestia (GLUT)
Explore the Universe in this detailed space simulation

Celestia (GNOME)
Explore the Universe in this detailed space simulation

Chemtool
The molecules drawing program (2D)
Childsplay
Suite of educational games for young children

mgllab
Data handling and plotting tool
Clustal X
Global multiple nucleotide or peptide sequence alignment and phylogenetic analysis

code-aster-gui
Graphical command editor for Code_Aster.
Colobot
Colonize with bots
Classrooom control
Teacher tool to control classroom computers

Critterding
Petri dish universe in 3D that demonstrates evolving artificial life
CTSim Computed Tomography Simulator
Simulate the process of X-ray Computed Tomography

GNU Denemo
Edit musical scores
Engauge Digitizer 10.7
Extract data from graphs
Engauge Digitizer 10.11
Extract data from graphs

Dozzaqueux
Simulator for chemical mixtures

DRAWxtl
Display crystal structures

Dr.Geo
Dr.Geo Math Tool

DrMIPS
Educational MIPS simulator
Drumstick Drum Grid
Drumstick Drum Grid
Drumstick MIDI Player
Drumstick MIDI Player
Drumstick Virtual Piano
Drumstick Virtual Piano
GNUplot
Interactive plotting program
dvorak7min
a typing tutor for the Dvorak keyboard layout