This project aims at creating a program that modelises an idiotypic network. This is a biological phenomenon in the immune system. We want to see how thing will behave by using a graphical library.
Set of iterative filters.
A simulator for LC-MS (Liquid Chromatography - Mass Spectrometry) data.
Latronix Regnum Arts - Open Source Faction is an open source and freeware developer for all sorts of goodies. Be it games or applications. This is the home for the Drug Turfs Game (A Drug Wars like game) and the Drug Turfs Library.
Genetic epidemiology library from London School of Hygiene and Tropical Medicine.
Parallel pairwise correlation computation on Intel Xeon Phi clusters
The first parallel and distributed library for pairwise correlation/dependence computation on Intel Xeon Phi clusters. This library is written in C++ template classes and achieves high speed by exploring the SIMD-instruction-level and thread-level parallelism within Xeon Phis as well as accelerator-level parallelism among multiple Xeon Phis. To facilitate balanced workload distribution, we have proposed a general framework for symmetric all-pairs computation by building provable bijective...
Elastic network models (ENMs) have been shown to generate the dominant functional equilibrium motions of biomolecules quickly and efficiently. MAVEN simplifies ENM generation, allows for diverse models to be used, and facilitates useful analyses.
MGEScan is a suite of two software tools MGEScan-LTR and MGEScan-non-LTR. MGEScan-LTR is a software that can identify new LTR retrotransposons without relying on a library of known elements. It uses approximate string matching technique and protein domain analysis to detect intact LTR retrotransposons. In addition, it identifies partially deleted or solo LTRs using profile Hidden Markov Models (pHMMs). MGEScan-non-LTR is a software for the identification of non-LTR retrotransposons...
MIVF - Medical Imaging and Visualization Factory, is a framework for medical applications. It supplies a platform, in which image processing and 3D visualization algorithms can be employed as reusable components (functional modules or plugins).
MSL is a C++ library that enables the computational study of macromolecules. The MSL library is not a program (although some applications are distributed) but a tool for scientist to code their own molecular modeling methods. Philosophy The main goal is to create a set of tools that enable the computational study of macromolecules with relative ease at all levels, from simple operations (for example, load a PDB and measure a distance or edit a dihedral) to complex applications (protein...
MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools.
The MeVisLab Community project provides add-on modules that extend the functionality of the MeVisLab software. The modules are provided and maintained by the MeVisLab developer community and can be compiled with the public MeVisLab SDK.
A medical information system for Windows-based systems (95-XP/CE/PocketPC) based on Open Source platforms
The Molecular Modeling Templates, MMT is a C++ class library for molecular simulation applications. MMT serves as a code basis that can be easily extended and modified to perform Monte Carlo and molecular dynamics simulations.
Multiscale Neuroscience and Systems Biology Simulator
Moose is the core of a modern software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes. We have moved Github.com. This should be your source for the latest version of the code.
Moose-G3 has been renamed to Moose.
Multi-technology, INDEL aware error correction for NGS data
MuffinEC is an error correction software capable of handling all types of errors (insertion deletions, mismatches and unknown bases). It officially supports four technologies (Illumina, 454, ion Torrent and PacBio - experimental) and it also has a generic setup for others (old and/or new). It is released under LGPL version 3.0. MuffinEC can use multicore systems, thanks to its OpenMP implementation. We are developing the 2nd version of MuffinEC. The beta version is already available online....
The Nexus Class Library (NCL) is a C++ library for interpreting data files created according to the NEXUS file format used in phylogenetic systematics and molecular evolution.
NeMo is a high-performance spiking neural network simulator which simulates networks of Izhikevich neurons on CUDA-enabled GPUs. NeMo is a C++ class library, with additional interfaces for pure C, Python, and Matlab.
A tool for decomposing biochemical networks into subnetworks based on the global geometry of the network.
Neuroshare is created to support the collaborative development of open library and data file format specifications for neurophysiology and distribute open-source data handling software tools for neuroscientists.
OOPS means Open Protein Simulator, it is a program designed to serve as a test bed for different algorithms for protein folding, dynamics and structure prediction. OOPS is based on a plugin architecture that makes it highly modular and extensible.
The OpenEEG project is about creating a low cost EEG device
Working hardware has been built and is in a late beta stage. Software is also available.
An open source framework for LC-MS based proteomics and metabolomics. OpenMS offers data structures and algorithms for the processing of mass spectrometry data. The library is written in C++.
OBExtensions is a extension library for the chemoinformatics library Openbabel. It provides extensions to Openbabel, being mostly GUI widgets. OBExtensions has a 2D/3D viewer, 2D coordinates generator and some other extensions.