Bio-Informatics
Showing page 1 of 4.
-
APBS 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/>.
163 weekly downloads -
BioImageXD BioImageXD - free open source software for analysis, processing and 3D rendering of multi dimensional, multi data channel, time series image data from microscopy and other sources.
93 weekly downloads -
Mapping and Assembly with Qualities Maq is a set of programs that map and assemble fixed-length Solexa/SOLiD reads in a fast and accurate way.
91 weekly downloads -
STochastic Engine for Pathway Simulation Stochastic simulator for signaling pathways occuring in biological cells. Handles reaction-diffusion processes in 3D tetrahedral meshes.
31 weekly downloads -
LDhat Estimate Recombination Rates from Population Genetic Data
44 weekly downloads -
RasMol The SourceForge OpenRasMol project is an adjunct to the RasMol and OpenrasMol project at http://rasmol.org. It is hoped that the SourceForge OpenRasMol project will provide a convenient focal point for active collaborative contributions.
60 weekly downloads -
openModeller openModeller is a complete C++ framework for species potential distribution modelling. The project also includes a graphical user interface, a web service interface and an API for Python.
134 weekly downloads -
codonPhyML codonPhyML uses Markovian codon models of evolution in phylogeny reconstruction. Given a set of species characterized by their DNA sequences as input, codonPhyML will return the phylogenetic tree that best describes their evolutionary relationship. Our paper describing codonPhyML has been published in the journal "Molecular Biology and Evolution". For more details, follow the link: http://mbe.oxfordjournals.org/content/30/6/1270.
24 weekly downloads -
Bayesian Network tools in Java (BNJ) Bayesian Network tools in Java (BNJ) is an open-source suite of software tools for research and development using graphical models of probability. It is published by the Kansas State University Laboratory for Knowledge Discovery in Databases (KDD).
35 weekly downloads -
sRNAWorkbench The UEA sRNA Workbench
62 weekly downloads -
CBFlib CBFLIB is a library of ANSI-C functions providing a simple mechanism for accessing Crystallographic Binary Files (CBF files) and Image-supporting CIF (imgCIF) files. The CBFLIB API is loosely based on the CIFPARSE API for mmCIF files.
55 weekly downloads -
apLCMS The package generates a feature table from a batch of LC/MS spectra in .cdf format. Instructions: http://www.sph.emory.edu/apLCMS/ References Bioinformatics. 25(15):1930-36. BMC Bioinformatics. 11:559.
45 weekly downloads -
PASA The Program to Assemble Spliced Alignments (PASA) is used to automatically incorporate ESTs and full-length cDNAs into gene structure annotations, in the process annotating UTRs, alternative splicing variations, and polyadenylation sites.
31 weekly downloads -
Nukak3D 3D medical image platform for visualization and image processing. Segmentation with Levels sets. Surface reconstruction with marching Cubes, texture Mapping and Raycasting,DICOM support. Integration environment for VTK, ITK and vtkInria3D under wxWidgets
14 weekly downloads -
Gemi PCR oligos / primers design from multiple sequence alignments
19 weekly downloads -
SMSD SMSD is a Java based software library for calculating MCS.
13 weekly downloads -
APBSmem APBSmem is a Java-based graphical user interface for Poisson-Boltzmann electrostatics calculations at the membrane. APBS version 1.2.0 or later is required.
9 weekly downloads -
Entrainer Entrainer is a Java program (JRE 1.7.0_07+ required, available from http://java.sun.com/javase/downloads/index.jsp) which creates binaural beat frequencies with sound, light and animations for the purpose of entraining one's brain waves.
5 weekly downloads -
AutoDock Software in Parallel with GPUs Using the CUDA API this project modifies the AutoDock software to run in parallel on NVIDIA GPUs. Users will be able to download and compile the code and use AutoDock on CUDA capable Graphics Cards. Autodock is located at http://autodock.scripps.edu/
8 weekly downloads -
CQRlib CQRlib is an ANSI C implementation of a utility library for quaternion arithmetic and quaternion rotation math.
8 weekly downloads -
SmithWaterman Fast local sequence alignment for the masses!
8 weekly downloads -
(AB)² Simulation Simulation for Physics / Bilogics Systems
5 weekly downloads -
NeedlemanWunsch Fast global sequence alignment for the masses!
5 weekly downloads -
RAPD Primer Design from Metagenomes RAPD Primer Design from Metagenomes (RPD-M) scans metagenome sequences identifying and determining relative frequency of candidate primers for Random Amplification of Polymorphic DNA (RAPD) assays.
4 weekly downloads -
SOAPsv SOAPsv: is a program for detecting the structural variation
4 weekly downloads
