Hardware random number generator based on oscillator jitter
The Systems Biology Research Tool (SBRT) is both an application and an application programming interface (API) intended to facilitate the computational aspects of systems biology.
Vibtoolbox is a set of command line utilities for analysis of vibration and acoustic test data. The vibtoolbox utilities use the standard UNIX filter model and communicate via UNIX pipes.
Orthogonal (a.k.a manhattan) line routing is a technique for rendering a human-readable hierarchical diagram. Manhattanlines implements an orthogonal line routing algorithm that minimizes line length and crossings.
CoCAS: A ChIP-on-Chip Analysis Suite Written by : Touati Benoukraf, Pierre Cauchy, Romain Fenouil.
Software for the competitions on computational intelligence in games.
This is the gpl source code from the Foundation for Research and Technology -Heraklion, Crete, modified in 3 ways. 1) fixes the [x]GEMM LAPACK error. 2)lm.h renamed levmar.h to avoid conflict. 3) Two Makefiles are added.
SAMP contains a few helpful math functions. Very helpful with Geometry and Triginometry! There are two different options for the interface, command line or GUI. However, the GUI is still in development. SAMP runs on most Windows machines and some Linux
This game is actually a shooter. Shoot the Boohbahs with you magical sword and blow them out of your way. Try to rack up a high score. Remember that if you OR your sword gets hit by anything, you will lose health, and eventually, your three lives.
A genetic algorithm in Python for evolving programs that write a given string to an allocated dataspace, using a made-up machine language with only 7 instructions and flow reversal.
The Stem Cell Artificial Neural network project entails the analysis and integration of genomics data for extracting the stemness signature of several tissues by training a multiclass single-layer linear artificial neural network.
A whole exome sequencing analysis package and its graphical interface
During the past few years, whole exome sequencing has imposed itself for genetic research, largely due to its use for detection of causative mutations responsible for Mendelian disorders. As a consequence of their power and of the rapidly decreasing cost of these technologies, massive amount of exome sequencing data are generated and becoming available to a broadening community of scientists. However, these data remain difficult to analyze and interpret by the general scientific community, due to the limited bioinformatics resources that are currently freely available for their analysis and the partial information that they provide. Here, we present an interactive and free analysis package, ExAM, dedicated to whole exome sequencing data analysis. It is accessible to non-computer scientists and provides a complete set of information, as well as decision support to prioritize candidate disease causing variants.
Quantum universal object system with referencing and genetics
Jack LIRE (Linked Record) is a quantum database-backed life-long text record diary with referencing (linking) between records, and a data library for life-long keeping of files such as documents, photographs, music and more. The diary records are fully searchable. Files can be mentioned in diary records to preserve memories, document knowledge and ideas, and more. Massive numbers of diary records and files can be permanently kept. A database located on one computer can be accessed from another computer across a computer network or the Internet, and multiple people can sign into and work on the same database at the same time and share the diary records, files and other objects in the database.
ActiveX/ATL molecular viewer component
This is a ActiveX/ATL component that shows molecular structures in 3D. It can read atomistic .pdb and .xyz file formats. This control is made very simple and flexible. It may be useful for chemists or other scientists to put molecular structures in presentations such as power point, with the ability to rotate or zoom using the mouse. It can also be used in developing graphical user interface for molecular calculations, and in any programming IDE that allows insertion of ActiveX controls. The models are rendered using OpenGL, therefore it exploits optimizations provided by the graphics cards. NEW: Render as PNG with transparent background. Added small application that allows user to open molecular file and render it as a PNG file image PNG with transparent background. Can be quite useful in presentations and visual processing.
Finite element analysis of electromagnetic devices
Solves low frequency magnetic, electrostatic, heat flow, and current flow problems on 2D and axisymmetric domains via the finite element method.
Identify electronic resistor values
This HTML utility allows the user to select standard color codes or surface mount numbers, then it identifies the resistor value. There is no need to memorize color codes or multipliers. An online working example of this program can be used at ZoomAviation.com/programs.
Molecular dynamics by NMR data analysis
The software package 'relax' is designed for the study of molecular dynamics through the analysis of experimental NMR data. Organic molecules, proteins, RNA, DNA, sugars, and other biomolecules are all supported. It supports exponential curve fitting for the calculation of the R1 and R2 relaxation rates, calculation of the NOE, reduced spectral density mapping, the Lipari and Szabo model-free analysis, study of domain motions via the N-state model and frame order dynamics theories using anisotropic NMR parameters such as RDCs and PCSs, the investigation of stereochemistry in dynamic ensembles, and the analysis of relaxation dispersion data.
A Diagram Based Engineering Programable Numerical Simulation Workbench
By using Synaptics Designer, you can design, simulate, optimize your engineering numerical model using block diagrams and C like languages. The diagram models are module based, in which parts of the simulated system can be easily dislocated into separated model file, and being shared and collaborated between designs and designers. We are also looking forward to design a compatible hardware which can execute the block diagram models in realtime, by which users can realize both their designed simulator and controller.
OpenGrowth is a program which constructs de novo ligands for proteins.
OpenGrowth is a research program which grows new ligands in proteins by connecting small organic fragments. The details can be found in the original publication "OpenGrowth: an automated and rational algorithm for finding new protein ligands" (J. Med. Chem., http://dx.doi.org/10.1021/acs.jmedchem.5b00886). To use OpenGrowth, you will need OpenGrowth_1.0.zip and Resources_1.0.2.zip that can be found by clicking on the Files menu in the horizontal bar at the top (https://sourceforge.net/projects/opengrowth/files). OpenGrowthGUI, FOG2.0, and the 3Mer-Screen stand-alone can be found in OpenGrowth_1.0.zip. To prepare new fragments you need BuildingFragments_1.0.1.zip and the scripts for MD simulations are in MD-Scripts_1.0.1.zip. SMoG2016.tar.gz allows to compute a score with the newly developed function (J. Chem. Inf. Mod., http://pubs.acs.org/doi/abs/10.1021/acs.jcim.6b00610). For any questions, please send emails exclusively at firstname.lastname@example.org.
Crystal parameter computations from XRD data
Crystal hack is a simulation program to predict h, k, l and d-spacing for cubic and HCP binary crystal system from XRD data (2-Theta diffraction angle and wavelength of X-rays).
Lightweight Multigene Analyses in PAML
Maldonado E, Almeida D, Escalona T, Khan I, Vasconcelos V and Antunes A (2016) LMAP: Lightweight Multigene Analyses in PAML. BMC Bioinformatics, 17:354. doi: 10.1186/s12859-016-1204-5
Simple But Powerful VIM Based Build Environment With Flex & Bison
The project's main purpose is to combine the existing open source tools into a powerful development environment. This is not just a Visual Studio like development environment, but also a Notepad upgrade, which can also be used to perform common tasks in daily use.
Quantum transport code based on Gaussian03/09
Atomistic NanoTransport (ANT) comprises a series of codes designed to compute electronic quantum transport with a broad range of applicability in nanoelectronics. ANT.Gaussian (or ANT.G for brevity) relies on the popular quantum chemistry code GAUSSIAN03/09 code with which interfaces in a seamless manner. Straightforwad use of ANT.G include the computation of the zero-bias conductance (or, alternatively, the electrical current under an applied bias voltage) of a variety of nanoscale systems such as molecular bridges or simply metallic atomic contacts as those created with scanning tunneling microscope or break junction techniques. The use of ANT.G may also be naturally extended to the computation of scanning tunneling spectroscopy and the simulation of scanning tunneling and electrostatic force microscopy.
Deals with Real Number System.
Targeted towards the mathematical society, dealing with Linear Algebra. Echelon, System of Linear Equations, Inverse and many fundamental matrix operations. The system is limited to produced 9x9 matrix. For better and clearer view, increase size of console window from Top left > Properties > Layout > Screen and Buffer size, set them to 100w, 30h Your update and feedback is important for me, to make the software grow for individuals of this field to facilitate by adding more operations to it. I am working on more updates... stay connected. Compatible with Microsoft Windows: XP, 7, 8, 8.1
Mathematics script language for ODE and FE on Linux
Hmd is mathematics software for numerical computation of ordinary differential equations and finite elements. It has a console script interpreter, as well as a graphical interface script interpreter, for entering equations and statements, and a line plot display.