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4-Dimensional Cell Simulator (4DiCeS) is a framework on hybrid (stochastic and deterministic) modeling and simulation of (whole) cell environments in 4D. The framework may incorporate any reaction and diffusion algorithms applicable in a 4D grid layout.
A Folding@Home integrated monitoring environment, designed for Linux, *nix systems and Windows, which is intended to be easy-to-use and provide a flexible, customiseable and "user-friendly" environment for reviewing the status of active F@H clients.
Mito-MAS-m is a simulator of the mitochondrial inner membrane and the enzymatic complexes embedded in it, implementing a coarse-grained (CG) model of the molecules using rigid structures and Dissipative Particules Dynamics (DPD) as motion equation.
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The aim of this project is to produce an application that allows the user to run a range of statistical and pattern recognition techniques on microarray data.
Utility to convert the binary file format from an
ABI PRISM TM 377 DNA Sequencer to an xml file.
New project page:
https://github.com/eriksjolund/abi2xml
abi2xml was migrated to Github 6 February 2020.
Software package for biological sequence analysis and better organization of the sequence data.
Uses a modified version of alistat from Sean Eddy's group Squid package (http://selab.wustl.edu/cgi-bin/selab.pl?mode=software)
A C++ development library designed to make common operations on DNA and protein sequences easy. libGenome provides functionality to read, write, and manipulate sequence and annotation data in several file formats.
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Clouseau is an Open Source Bioinformatics suite. It's goal is to make analyzing and representing DNA as easy as possible. It's primary target is x86/Linux, but should be easily portable to any Linux/*nix-based OS.
A signal-based file translator and manipulator, designed for supporting any data file format used to store signal data, built to translate to and from MiniMitter's VitalView, Actimetrics' ClockLab, Flaga's Embla Somnologica and Udicus' own UDCS format.
Fast validation of FASTQ files containing paired-end reads
For a summary and user's guide, please see the Wiki page:
https://sourceforge.net/p/psfc/wiki/Home/
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