SAM (Sequence Alignment/Map) is a flexible generic format for storing nucleotide sequence alignment. SAMtools provide efficient utilities on manipulating alignments in the SAM format. The main samtools source code repository moved to GitHub in March 2012. For ongoing development since then, see http://github.com/samtools/samtools
BWA is a program for aligning sequencing reads against a large reference genome (e.g. human genome). It has two major components, one for read shorter than 150bp and the other for longer reads.
APBS is a software package for the numerical solution of the Poisson-Boltzmann equation, a popular continuum model for describing electrostatic interactions between molecular solutes over a wide range of length scales. <http://www.poissonboltzmann.org/>. Please register at http://goo.gl/LGVU5j before downloading!
UrJTAG aims to create an enhanced, modern tool for communicating over JTAG with flash chips, CPUs, and many more. It is a descendant of the popular openwince JTAG tools with a lot of additional features and enhancements.
Both forward-chaining and backward-chaining rules (which may include python code) are compiled into python. Can also automatically assemble python programs out of python functions which are attached to backward-chaining rules. See pyke.sourceforge.ne
jMetal is an object-oriented Java-based framework for solving multi-objective optimization problems with metaheuristics.
Build custom robots in your browser with IncrediBots! Design your robot by drawing shapes, joints, motors, and more! Then, pilot your machine using your own custom key bindings. NOTE: OPEN SOURCE VERSION CAN BE DOWNLOADED FROM "FILES" TAB!
Linear algebra and solver library using CUDA, OpenCL, and OpenMP
ViennaCL provides high level C++ interfaces for linear algebra routines on CPUs and GPUs using CUDA, OpenCL, and OpenMP. The focus is on generic implementations of iterative solvers often used for large linear systems and simple integration into existing projects.
Xdvi is a program for displaying DVI files on the X window system. Xdvik is a variant with hyperlink support and other additions, deployed e.g. in the TeX Live distribution.
high-performance nonlinear least squares solver for graph problems
SLAM++ is a minimalist implementation of incremental nonlinear least squares, containing lighting fast implementation of linear algebra on sparse block matrices. It is aimed for use in 3D reconstruction or robotics.
Genetic variants discovery tool
Bioinformatics pipeline for discovery of genetic variants from NGS reads.
PP3 creates celestial charts. It generates resolution independent sky maps of very high graphical quality. They can be used for example as illustrations in books or on web pages. Databases are included but you may use own data if you wish.
Open-source cross-platform spectrometer device driver
SeaBreeze is a device driver library that provides an interface to select Ocean Optics spectrometers. It is written in C/C++ and builds and runs on Windows (XP/7/8), MacOSX, and Linux (x86/x64/ARM).
Pretty Damn Quick (PDQ) analytically solves queueing network models of computer and manufacturing systems, data networks, etc., written in conventional programming languages. Generic or customized reports of predicted performance measures are output.
GGI stands for "General Graphics Interface", and it is a project that aims to develop a reliable, stable and fast graphics system that works everywhere. We want to allow any program using GGI to run on any platform requiring at most a recompile.
Drawing editors for PostScript, TeX, and web graphics. An embeddable and extendable vector graphic shell.
The tools in this package allow conversion of tracts from one CAMINO to TRACKVIS and vice versa in a very effective way with ability to handle over a million tracts.
FDS and Smokeview Development has moved to http://fire.nist.gov/fds please update your bookmarks.
Barracuda is a high-speed sequence aligner based on Sanger's BWA and utilizes the latest Nvidia CUDA architecture for accelerating alignments of sequence reads generated by next-generation sequencers.
PDSTRIP is a hydrodynamic strip code for seakeeping. It computes ship motions for monohulls including sailing boats. PDSTRIP has been abandoned by its initiators, who do not wish to be contacted with use questions. The position of maintainer is vacant.
The DMX software has been integrated into the X.org server software. Please download directly from X.org instead of from SourceForge. The code here is old and is no longer updated.
The Video Annotation and Reference System (VARS) is a software interface and database system that provides tools for describing, cataloging, retrieving, and viewing the visual, descriptive, and quantitative data associated with video.
This project contains both tools and data for Optical Flow evaluation purposes. It offers: many ground truth optical flow sequences; a tool for generating optical flow data from real sequences; implementations of some optical flow algorithms.