Search Results for "model-builder" - Page 4
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Showing 159 open source projects for "model-builder"
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pybrn is a Python package for the analysis of biochemical reaction networks. It provides basic model handling capabilities, import from SBML, analysis of conservation relations, steady state computation and model simulation.
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pyLuminous
python modules for modelling some optical systems.
This project is a collection of python modules for modelling various optical systems. It presently consists of pyFresnel and pyQW. pyFresnel models optical properties of dielectric layers and includes a thin film model (unlike the many other codes out there this can also handle uniaxial layers as long as the optical axis is aligned with the stack growth direction). pyQW models very simple (n-doped) quantum well structures and their intersubband transitions. -
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GMES
GMES is a free Python package for FDTD electromagnetic simulations.
GMES is a free finite-difference time-domain (FDTD) simulation Python package developed at GIST to model photonic devices. Its features include simulation in 1D, 2D, and 3D Cartesian coordinates, distributed memory parallelism on any system supporting the MPI standard, portable to any Unix-like system, variuos dispersive ε(ω) models, CPML absorbing boundaries and/or Bloch-periodic boundary conditions, and arbitrary material and source distributions. -
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The General Hidden Markov Model Library (GHMM) is a C library with additional Python bindings implementing a wide range of types of Hidden Markov Models and algorithms: discrete, continous emissions, basic training, HMM clustering, HMM mixtures.
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pyQPCR is a GUI application written in python that deals with quantitative PCR (QPCR) raw data. Using quantification cycle values extracted from QPCR instruments, it uses a proven and universally applicable model to give finalized quantification resu
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Template Code Set for JModelica
This is a template Python code set to use JModelica easily.
This is a template Python code set which makes it easy to use JModelica to solve optimal control problem. The template includes a sample model definition file (opt_definition.mop) and a .bat file (run_me.bat) to start its calculation. After download the template, immediately you can run JModelica by only double-clicking run_me.bat file, and obtain the optimization result. Please go to the page given below for the information of how to start to use this and its details. -
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HYBRYD
Library written in C with Python API for IPv6 networking
...Will put an IPv6 adress active available as soon as possible so that you can download pieces of codes. The aim of that coding was to use primary linux commands easily codable and make an object of an IPv6 connection. Moreover, the model is full-state! -
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Stochastic Rule Builder (SRB)
Modeling framework for capturing positional and temporal dynamics
...Our framework describes individual regulatory components using generic action oriented descriptions of their biochemical interactions with a DNA sequence. All the possible actions are based on the current state of factors bound to the DNA. We developed a rule builder to automatically generate the complete set of biochemical interaction rules for any given DNA sequence. Off-the-shelf stochastic simulation engines can model the behavior of a system of rules and the resulting changes in the configuration of bound factors can be visualized. -
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memesa-tools
A collection of tools used in the enumeration of solution spaces
This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function. -
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That project aims at providing a clean API and a simple implementation, as a C++ library, of an Airline-related Inventory Management system. That library uses the Standard Airline IT C++ object model (http://sf.net/projects/stdair).
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Virus QSP Modeling
C++ and Python code for simulating RNA virus replication
Stochastic simulation model of poliovirus Sabin-to-Mahoney genetic state transition (C++ code). Models genotypes, virus populations, and quasispecies cloud. Simulates replication error and copy-choice recombination. Various parameters guiding the model are user-specified. Python code post-processes simulation output to produce report files. -
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PanelCheck is an easy-to-use software tool for visualization of sensory profiling data using different types of plots. The joint information from the implemented plots provide detailed insight into assessor and panel performance.
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This project provides a Fortran90 library and a python module for singular spectrum analyses such as PCA/EOF or MSSA. It is intended for people interested, for example, in analysing climate or financial variability.
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Malware Analysis Network in Taiwan
MAN in Taiwan, MiT
Malware Analysis Network in Taiwan <Man in Taiwan, MiT> Welcome to contact us (TonTon@TWMAN.ORG) if you are interested in collaborating with us. This project is open source and distributed under the GNU General Public License version 3. Please feel free to add to or modify this source and propose changes or new converters. Developer & Copyrighted by : TonTon Hsien-De Huang Prompter: Jazz Yao-Tsung Wang, Figaro Chen-Ho Yang | Logo Desinger:Temaki Guo Community on... -
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graphene-like-ribbons
Calculate electronic properties of graphene-like nanoribbons
User friendly interface for calculating electronic properties in graphene-like ribbons. The programs uses the tight binding approximation and mean field Hubbard model to predict electronic properties of graphene-like nanoribbons. See Discussion to ask questions or details Update: New versions of this program will be known as quantum-honeycomp -
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VirtualRoot
CPIB project aims to create a multiscale model of a plant root
The Centre for Plant Integrative Biology’s (University of Nottingham) core project aims to create a multiscale model of a plant root, based on the model higher plant Arabidopsis thaliana -
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N.Tesla
Numerical Transient Simulator for Power System
...Please go to https://github.com/changgang/steps for latest version. _______________________________ Great news. Version 0.6.6 is released with HVDC and Switched shunt model for powerflow. Please leave feedback to the developer. N.Tesla is an open source project to provide students and researchers of EE with a tool to implement new models for power system study and research. N.Tesla is short for Numerical TransiEnt SimuLAtor for power system and is in memory of Nikola Tesla, one the greatest scientists in alternating current power system. ... -
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ThermV
Comprehensive thermal analysis software package
...It offers new algorithm for concurrent peak deconvolution at different heating rates and provides full kinetic analysis of these data, including isoconversional methods for Ea, determination of reaction model and full kinetic triplet, Avrami coefficients, and dimensionality of crystal growth for reactions in the solid state. The project is currently in alpha stage, where individual modules will be provided for data analysis. The modules for peak deconvolution, peak profile analysis and determination of Ea and lnA will be provided first. ... -
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globalsoilmap.net/GSIF AG toolbox
facilitating predictions of parameters using statistical models
streamline the DSM process in ArcGIS/Numpy/GDAL/Python using Sampling, Statistical elaboration, Prediction to allow the application of extended statistical models generated by the CUBIST (TM) or JMP (TM) software to a set of auxiliary input parameters, thereby bypassing the need to i) manually calculate the equations using Raster calculator; ii) use a grid-to-point conversion process prior to applying the prediction model in the statistical software itself and then a point-to-grid conversion process. -
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MRA
A general recommender system with basic models and MRA
Multi-categorization Recommendation Adjusting (MRA) is to optimize the results of recommendation based on traditional(basic) recommendation models, through introducing objective category information and taking use of the feature that users always get the habits of preferring certain categories. Besides this, there are two advantages of this improved model: 1) it can be easily applied to any kind of existing recommendation models. And 2) a controller is set in this improved model to provide controllable adjustment range, which thereby makes it possible to provide optional modes of recommendation aiming different kinds of users. -
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The CAPS Scenario Builder will allow government officials, conservation groups and others to submit "scenarios" for proposed changes to land cover and infrastructure so that these changes can be assessed for their impact on ecological integrity.
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SeqSelector
Tools to select sequences for capture enrichment of next-gen libraries
The SeqSelector toolset is a suite of user-friendly, platform independent python scripts to facilitate selection of sequences for targeted enrichment of next-generation libraries through hybridization-based sequence capture. The scripts require no knowledge of programming, and can be applied to genome sequences of model or non-model species. We suggest a workflow in which genes of interest are first identified from previous studies and publicly available datasets of functional gene annotation. Once a list of candidate genes has been identified, their sequences are selected from the reference genome. These sequences are used as a query during a BLAST search of the unannotated genome of a non-model species, and then the corresponding sequences are returned, which can be used to design baits for hybridization-based sequence capture. -
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OpenCMISS-Zinc
A Library for Interactive Modelling and Visualisation
...Models are represented in Zinc as mathematical fields defined over domains, including finite elements with support for high-order basis functions, complex parameter mappings and time variation, and image-based fields. Further fields can be defined by mathematical expressions and algorithms on existing fields, including image processing filters. Zinc model data structures are dynamic, supporting interactive applications which programmatically create, destroy and modify parts of models. -
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WISP
Weighted Implementation of Suboptimal Paths (WISP)
UPDATE: LATEST VERSION AT http://git.durrantlab.com//jdurrant/wisp Allostery can occur by way of subtle cooperation among protein residues (e.g., amino acids) even in the absence of large conformational shifts. Dynamical network analysis has been used to model this cooperation, helping to computationally explain how binding to an allosteric site can impact the behavior of a primary site often many angstroms away. Traditionally, computational efforts have focused on the most optimal path of correlated motions leading from the allosteric to the primary active site. We present a program called Weighted Implementation of Suboptimal Paths (WISP) capable of rapidly identifying additional suboptimal pathways that may also play important roles in the transmission of allosteric signals. ... -
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Galactus
A neutral hydrogen galaxy modeling and fitting tool
Galactus is a new astronomical modeling package. The aim is to model and fit datacubes from radio synthesis telescopes. Galactus is the only HI tool which can predict the HI (self-)absorption.
