Bowtie, an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers. Please cite: Langmead B, et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
A free transportation simulator game
Simutrans is a cross-platform simulation game where players try to successfully manage transportation systems between places by land, air, and water for passengers, mail, and goods. Planes, ships, trains, trams, trucks, buses, or monorails are at your disposal, but factories operate based on contracts and passengers can only travel to their set destinations.
An intuitive molecular editor and visualization tool
Avogadro is an advanced molecular editor designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science and related areas. It offers a flexible rendering framework and a powerful plugin architecture.
nagiosgraph parses output and performance data from Nagios plugins, stores the data in RRD files, and creates graphs and reports from the data. Graphs and reports can be embedded in Nagios. Easy to setup, highly customizable, and few dependencies.
GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.
A Java based HTTP/HTTPS proxy for assessing web application vulnerability. It supports editing/viewing HTTP messages on-the-fly. Other featuers include spiders, client certificate, proxy-chaining, intelligent scanning for XSS and SQL injections etc.
The PDL module gives standard perl the ability to COMPACTLY store and SPEEDILY manipulate the large N-dimensional data sets that are the bread and butter of scientific computing.
HTML::Index - Perl modules for creating and searching an index of HTML files
This Database Test Suite aims to create database workload test kits used to simulate heavy user loads for OLTP, Decision Support, and e-commerce database transactions. These test kits can also be used to gather performance results for Linux and other
The home of the Gene Ontology project on SourceForge, including ontology requests, software downloads, bug trackers, and much, much more.
FLib is a collection of high-quality Java classes and GUI components.
C compiler and dev kit for the z80 with assembly language libraries.
Z88DK is a complete Z80 / Z180 development kit that includes C compiler, assembler, linker, a tool for generating executables in a number of formats, and miscellaneous other tools. Over 50 machines are directly supported out of the box including standalone Z80 and Z180 embedded systems. Z88DK's extensive assembly language libraries give it significant performance advantages over other Z80 C Compilers. Building software for standalone or generic Z80 systems: https://www.z88dk.org/wiki/doku.php?id=libnew:target_embedded Visit us at github for the current version with bugfixes and new features: https://github.com/z88dk/z88dk
This project is to provide a repository of Perl scripts, or links to where such Perl scripts might be found, for use on Fidonet Technology Networks (FTN) systems. A longer term goal is for the development of Perl Module(s), using the "FTN" namespace.
A Perl script that, given the output of the Firefox extension Live HTTP Headers, will replay the script using Test::WWW::Mechanize.
GNU make compatible but reliable and simpler build tool
Makepp, a build program which has a number of features that allow for reliable builds and simpler build files, is a drop-in replacement for GNU make. It supports almost all of the syntax that GNU make supports, and can be used with makefiles produced by utilities such as automake. It is called makepp (or make++) because it was designed with special support for C++, which has since been extended to other languages like Swig or embedded SQL. Some features that makepp adds to make are: greatly improved handling of builds that involve multiple makefiles (recursive make is no longer necessary); automatic scanning for include files; rebuild triggered if build command changes; checksum-based signature methods for reliable builds, smart enough to ignore whitespace or comment changes; extensibility through Perl programming (within your makefile); repositories (automatically importing files from another tree); build caches (not recompiling identically what a user of the same cache already did
Jetty is an open-source project providing a HTTP server, HTTP client and javax.servlet container. The latest releases of Jetty are hosted from http://jetty.codehaus.org and http://eclipse.org/jetty.
MidiQuickFix allows you to directly edit the events in a Midi file. It is intended to make it easy to find and fix problems, such as setting volume and pan values for a track, without the need for a complex Midi sequencing program.
The LPRng software is an enhanced, extended, and portable implementation of the Berkeley LPR print spooler functionality. While providing the same interface and meeting RFC1179 requirements, the implementation is completely new and provides suppo
Building a small bundle for MacOS X 10.2 in order to support menu extras in the same way they were supported in MacOS X 10.1
A collection of Perl libraries and tools to interface with the Palm Strip application for storing encrypted passwords.
The PyGE (Python Gutenberg E-text) project is a suite of GUI desktop utilities written in Python to promote and facilitate awareness and enjoyment of works of literature that are available from the archives of Project Gutenberg.
Binary Perl Distribution
Binary perl distribution with pre-built modules for Wx, DBD::Pg and DBD::mysql.
innotop is a powerful monitor for MySQL queries and status information. It is now hosted at http://code.google.com/p/innotop.
A software solution for clustering large EST/mRNAs datasets.
sendcard is an advanced e-card program, which supports 9 different databases. For a full run-down of the features of this postcards application, please see the Home page. In no time at all you'll be sending ecards with sendcard!