Search Results for "bio-bwa" - Page 12
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Showing 344 open source projects for "bio-bwa"
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EGEETomo aims at creating a grid oriented tool to perform tomographic reconstruction on the field of electron microscopy. It is specially designed to work on the EGEE grid but could be easily adapted to other grid platforms.
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ProteinFinder - a C language parallel computing engine for tandem protein mass spectrometry database search. ProteinFinder is interfaced with MySQL relational database MassSpec that hosts the experimental data, predicted databases, and search results.
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EvoRadical was written in C. It implements a new codon-based likelihood models for detecting site-specific selection pressures acting on specific physicochemical properties.
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RepeatFinder is a command line tool for generating non-overlapping matches of microsatellite DNA from FASTA format code.
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A library to speed the porting of general purpose bio(blocking io, OSS/ALSA) audio applications to the Jack audio server(http://jackit.sourceforge.net).
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The program consgen takes multiple protein structures in PDB format and aligns them using a modified Procrustes method that aims to maximize residue similarity. The principal result is a consensus structure showing residue conservation.
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BioPostgres is a collection of modules that extend PostgreSQL for applications in Computational Biology. These modules implement new datatypes with query operators and other tools for large-scale query and analysis.
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OpenEMS™ is the multi platform Grid framework to seamlessly aggregate all your multi platform resources into a virtual super computer.
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UMD Overlapper takes a set of reads and quality data and determines which read pairs plausibly overlap; that is, it determines the pairs of reads containing subsequences that are similar enough that they may have come from overlapping parts of the genome.
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A group of statistical tools used in the development and structuring of clinical trials by the American Cancer Society. Sample size calculators.
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ea-fold is a platform to perform protein folding simulations by means of evolutionary algorithms. The program implements a parallelized distributed evolutionary algorithms and a flexible force field.
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Acre calculates growing-space or stand-density of trees and creats pictures of it. It can also be used to calculate weighted Voronoi-Diagrams (splits up an area to the neares point or to the point with the greatest influence at a certain place).
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BLASTgres is a set of modules that can be added to PostgreSQL for data management of biological sequences. It extends PostgreSQL with datatypes for sequence information and middleware for dynamic access to sequence analysis tools & services like BLAST.
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CompuCell3D is a software framework for multimodel simulations of biocomplexity problems. It has been developed as an ongoing project for the Interdisciplinary Center for the Study of Biocomplexity at the university of Notre Dame.
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This is the command-line C-Language implementation of the PATOSEQ motif alignment algorithm as presented in (Bioinformatics, 18(8):1091-1101, 2002).
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VariScan is a software package for the analysis of DNA sequence polymorphisms at the whole genome scale.
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Tools for comparative sequence analysis. Includes FamilyRelations (GUI) and a C++ toolkit/Python wrapper for doing fixed-width-window analyses.
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QTL Reaper analyzes data from progeny of a genetic cross in experimental plants or animals. It seeks the location of genes that affect a heritable trait, and it is specially designed for analysis of gene expression measurements.
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PEBLS Evolutionary Biology Libraries (PEBLs) provides a framework to develop programs quickly and effectively in Java, C++, and C.
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Sampsize computes sample size and power for surveys, comparative studies including non-inferiority trials and case-control studies.
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The ISOTOPIC PATTERN CALCULATOR is a small linux tool for mass spectrometry. It calculates the isotopic distribution for a given chemical formula or peptide sequence. GIPS is a GUI Version of the Isotopic Pattern Calculator.
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We use R (www.r-project.org) in order to generate a greater specificity and sensitivity of protein identification by Mass Spectrometry. These functions are implemented as add-on packages to the open source GPL software R.
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CodonW is a programme designed to simplify the Multivariate analysis (correspondence analysis) of codon and amino acid usage. It was written in ANSI compliant C. See the README file for more information.
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runsbml - Pathway Simulation Tool emulates the dynamics of biological pathways by calculating concentrations of biochemical compounds at different times and conditions.