Showing 199 open source projects for "bio-bwa"

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  • 1
    runsbml - Pathway Simulation Tool emulates the dynamics of biological pathways by calculating concentrations of biochemical compounds at different times and conditions.
    Downloads: 0 This Week
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  • 2
    A program to simulate the ribosome and other macromolecular systems
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  • 3
    The Synaptic Simulator is a program which simulates models of single neuronal synapses and compartments, complex constructs of such models. Furthermore the program is able to regain parameters by fitting simulated results with experimental data.
    Downloads: 0 This Week
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  • 4
    lazar (Lazy Structure-Activity Relationships) is a tool for the prediction of toxic activities of chemical structures.
    Downloads: 0 This Week
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  • 5
    defunct
    Downloads: 0 This Week
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  • 6
    Frowns is a chemoinformatics system written almost entirely in python.
    Downloads: 0 This Week
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  • 7
    MSQuant is a tool for quantitative proteomics/mass spectrometry and processes spectra and LC runs to find quantitative information about proteins and peptides. Though automated it also allows manual inspection and change.
    Downloads: 0 This Week
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  • 8
    A Java program to parse chemical names using IUPAC nomenclature. The output can be either a visualisation of the molecule, or in a form for other programs to use (e.g. CML).
    Downloads: 1 This Week
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  • 9
    Trelis is a graphical Monte Carlo simulation tool for modeling the time evolution of chemical reaction systems involving small numbers of reactant molecules, such as occur in subcellular biological processes like genetic regulatory networks.
    Downloads: 0 This Week
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    Cyber Risk Assessment and Management Platform

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  • 10
    This project provides open software for working with analytical instrumentation data using the ASTM "ANDI" standard.
    Downloads: 0 This Week
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  • 11
    Attn: the latest version of PeptideProphet must be obtained as part of the Trans-Proteomic Pipeline package at http://sourceforge.net/projects/sashimi/.
    Downloads: 0 This Week
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  • 12
    The JPAT API is a Java API designed to provide developers with tools for calculating the results of protease digestion of proteins and ms/ms fragmentation of peptides. JPAT also contains GUI components for displaying the results. JPAT is a nice way to get
    Downloads: 0 This Week
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  • 13
    ABE is a small, fast and convenient program for visualizing and modeling experimental bioassay data. The data can be modeled using either polynomials or a more specific four-parameter model based upon the standard, sigmoidal dose-response curve.
    Downloads: 0 This Week
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  • 14
    Two Dimensional NOesy simulation (TDN) implementents an algorithm that creates a time-domain 2D NOesy spectrum. TDN does not calculated the nOe peak intensities, Therefore, you will need the CORMA (Complete nuclear Overhauser Relaxation Matrices).
    Downloads: 0 This Week
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  • 15
    Extensible 3-dimensional chemical reaction modeling tool that utilizes the known scientific rules and theorems to predict complex molecular reactions on an organismal level. Will serve as a starting point for developing a simulated organism.
    Downloads: 0 This Week
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  • 16
    The project aims at building effective parameter estimation method using loopy belief propagation algorithm. The main application is in the field of molecular pathway study, such as Akt survival pathway.
    Downloads: 0 This Week
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  • 17
    The RNA Ontology Consortium proposed a translation the RNA backbone angles to 46 clusters ('suites') and hence unique names. This project calculates the suites from RNA 3D structures, and to search on a Java-based index structure of known folds.
    Downloads: 0 This Week
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  • 18
    The platestats software aims to provide a convenient solution for analyzing the results of biological assays performed in 96- and 384-well plates.
    Downloads: 0 This Week
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  • 19
    QGAMESS is a queuing program for the popular molecule mechnanics program GAMESS, the General Atomic and Molecular Electronic Structure System. QGAMESS is a cross-platform replacement for GTK-Gamess.
    Downloads: 0 This Week
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  • 20
    PNE provides an environment for modeling, simulating, and optimizing biological networks including regulatory and metabolic networks.
    Downloads: 0 This Week
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  • 21
    The program fuses 2 sets of molecules. It tries different relative positions of molecules before binding them, so that there is no or minimal intersection in the resulting molecule. The atom to be fused in a molecule is labeled with an R symbol.
    Downloads: 0 This Week
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  • 22
    Jaqpot3
    The JAQPOT3 web services are OpenTox API-1.2 compliant web services. JAQPOT3 is a web application that supports model training and data preprocessing algorithms such as MLR, SVM, ANN and more.
    Downloads: 0 This Week
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  • 23
    Basic life is an application that desires to simulate basic life based on some basic chemistry/physics rules. This environment provides particles that can bond, vibrate, react, etc. in order to create basic cells
    Downloads: 0 This Week
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  • 24
    MyLabBook

    MyLabBook

    A Free and Open Source Electronic Lab Notebook based on WordPress

    MyLabBook is a free and open source electronic lab notebook (ELN) built on on the WordPress CMS. The basic installation provides capabilities for collecting, displaying and sorting data with a sample data set and can be modified for different experiments. It can easily accommodate hundreds of users with a role based permission system. This makes it appropriate for classroom situations especially but can also accommodate individual researchers or research teams. Being built on WordPress...
    Downloads: 0 This Week
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