Search Results for "structural software" - Page 4
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Showing 112 open source projects for "structural software"
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MSL
http://dx.doi.org/10.1002/jcc.22968
...MSL is developed in the Senes Lab at the University of Wisconsin-Madison and by a team of developers/users from other research laboratories. Reference: Kulp DW, Subramaniam S, Donald JE, Hannigan BT, Mueller BK, Grigoryan G, Senes A. Structural informatics, modeling, and design with an open-source Molecular Software Library (MSL). J Comput Chem. 2012 vol. 33 pages 1645-61 Download article at http://dx.doi.org/10.1002/jcc.22968 -
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OpenFlux2 is an extended version of OpenFLUX (https://sourceforge.net/projects/openflux/) - the modern MATLAB-based modelling software for 13C flux analysis (MFA). The following features were implemented in OpenFLUX2, which were not present in original software: integrated support for calculation and analysis of parallel labeling experiments (PLE), extended statistical analysis of parameter estimation results, calculation of fluxes and measurements correlation, structural identifiability analysis and elements of experimental design.
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PyInteraph
analysis of interaction networks in structural ensembles of proteins
PyInteraph is a software research tool for the analysis of structural communication protein ensembles. It has been designed to analyze MD and structural ensembles with attention to binary interactions between residues, such as hydrogen bonds, salt bridges, and hydrophobic interactions. Once the interactions have been calculated, it is able to use different classes of intra- and intermolecular interactions, combined or alone, to calculate comprehensive interaction graphs. ... -
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BoneSlicer
Experimental G-Code-Generator for variable density infill in FFF parts
BoneSlicer is an experimental G-Code-Generator written in Java that allows creating load-adapted infill for 3D printed (FFF) parts, inspired by the adaptive structures of trabecular bone tissue. It uses a simple structural Finite Element Analysis to determine the distribution of mechanical stress within the part and offers tools to generate an infill structure consisting of multiple subareas of varying infill density. Subdivision of the infill area can be based on a broad spectrum of FEA result parameters. BoneSlicer relies on the Open Source software GMesh and Calculix for meshing and FEA analysis. ... -
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SPADE
A toolkit for developing and deploying protein structure algorithms.
The Structural Proteomics Application Development Environment is a Python tool kit for developing and deploying bioinformatics applications. Handles graphics, analysis, and modeling of protein sequence and structure. Source and Win installers available. SPADE source code can be cloned from http://www.github.com/deaconjs/SPADE. -
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The Engineering Software. The beam.
The engineering software for structural calculations of metal beams.
The engineering software for structural calculations of metal beams. -
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H3M2
H3M2: Detection of ROH from whole-exome sequencing data
ATTENTION!!!!!ATTENTION!!!!!ATTENTION!!!!!ATTENTION!!!!! We recently published on Computational and Structural Biotechnology Journal (CSBJ) a novel software package, named AUDACITY, for the identification of Runs of Homozygosity by using VCF files from whole-exome and whole-genome sequencing data generated by second generation sequencing technologies. (https://www.sciencedirect.com/science/article/pii/S2001037020303354). AUDACITY is freely available at https://sourceforge.net/projects/audacity-tool/. ... -
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ParaSim
Parallelized calculation of molecular similarities
...As as special feature, ParaSim allows to store and and to access frequently queried datasets as persistant objects in memory for short response times. ParaSim calculates chemical similarities based on binary structural fingerprints. It does not compute fingerprints by itself but relies on third party software to do so. Basically, all types of structural fingerprints which can be stored in an array of bits (a bitset) can be used by ParaSim. See the Wiki (https://sourceforge.net/p/parasim/wiki/Documentation/) for detailed documentation. FEEDBACK HIGHLY APPRECIATED! -
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JetBrains MPS
JetBrains Meta programming System
MPS (Meta Programming System) is an advanced language workbench and integrated development environment created by JetBrains that lets developers define, compose, and use domain-specific languages (DSLs) with rich tooling support. Unlike traditional text editors that treat code as plain text, MPS represents programs as structured models, enabling projectional editing where syntax, constraints, and semantics of DSLs are enforced by the editor itself, reducing parsing ambiguities and expanding... -
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FloydEditor is an Eclipse plugin for the interactive fiction authoring tool Floyd. FloydEditor supports structural overview for written floyd code, context sensitive support for code insertions and many more.
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PercolaLand
PercolaLand 1.0 A tool to calculate landscapes percolation probability
PercolaLand software is a result implementing of new structural metric used to calculate percolation probability in binary landscapes. Much of the progress in spatial patterns and structure changes understanding have supported in percolation theory. Percolation theory aims to evaluate how connectivity is broken into spatially structured systems or quantifies the connectivity structure. -
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Configuration markup language
Human readable and human writable format for the config files
...But too much <tag></tag> everywhere make the XML for *.config or *.ini files almost human unreadable and uneditable. This library intended to read text of markup configurations files in uniform way. Text information from the file is loaded by your program as a structural tree. After slurping a *.config file we can supply the resulting objects to object instances of our program to let them configure themselves. So, it facilitates text information to supply configuration data to object-oriented software. Advantage - we can use markups to mark just the groups of the parameters only. And we do obliged not to keep markups for the every Name=Value pairs like XML does. ... -
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The Xtal System is a comprehensive suite of small molecule structural solution, refinement and analysis software, supporting both X-ray, neutron and electron diffraction data. It runs on both Unix and MS Win32 platforms and uses tcl/tk graphics.
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Blueprint CSS
A CSS framework that aims to cut down on your CSS development time
Blueprint CSS is a CSS framework aimed at accelerating layout and typographic design by providing robust base styles, grid systems, and reusable UI components. It combines normalized defaults with helpful utilities—such as column layouts, form styling, and typography helpers—so developers can build responsive sites with less repetitive CSS. Because it’s designed as a structural foundation rather than a themed UI kit, it’s easy to layer branding and custom design on top without fighting the... -
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Programming language Karel is a game to learn structural programming. It consist of graphical user interface and debugger that provide easy and fast learning.
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ztest is a java 1.5+ classlibrary for writing structural junit tests. Specify, enforce and reuse an architecture for java based software. Works on java bytecode, no sourcecode changes. Export diagrams to graphml and layout them with yEd.
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DCS3D will be a semi parametric and freeform 3d modelling and automated 2d output add on tool kit for AutoCAD. These tools will aid in the design and detailing of structural elements with the main focus being on structural steel and associated struct
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The Whiteoak programming language, http://whiteoak.sourceforge.net, is a Java 6 extension that supports: structural subtyping (structural conformance), virtual fields and constructors, mixin-like/trait-like composition of objects and more.
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NetZen is a social network analysis and visualization software, designed for quick sensitivity analysis and integrated visualization of structural and semantic properties of social networks
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METSbuilder is a digitisation tool. It extracts technical metadata from master image files and produces METS metadata packages for the item, containing structural, bibliographic (Dublin Core), technical image (MIX) and preservation (PREMIS) metadata.
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The scala-fast-dynamic is a compiler plugin + a small runtime library for the Scala programming language (http://www.scala-lang.org) that re-implement the way structural types are translated into JVM bytecode, achieving higher performance.
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MBDyn_sim_suite is a collection of free pre&post-processing tools and simulation models for the open-source multi-body analysis software MBDyn forming a general purpose simulation environment for structural dynamics with an emphasis on wind turbines.
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This project is an open source implementation of axial space syntax software. Space syntax is an analytic urban theory used by researchers to understand elements of the structural aspects of design and how these effect pedestrians and social interaction.
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The Biomolecule Toolkit is a library for modeling biological macromolecules such as proteins, DNA and RNA. It provides a C++ interface for common tasks in structural biology to facilitate the development of molecular modeling, design and analysis tools.
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SORGE; a visualisation tool for the activity and structural hierarchy of chromosomal, genomic, and gene annotation
