Showing 23 open source projects for "model"

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  • 1
    Bio7
    The application Bio7 is an integrated development environment for ecological modelling and contains powerful tools for model creation, scientific image analysis and statistical analysis. The application itself is based on an RCP-Eclipse-Environment (Rich-Client-Platform) which offers a huge flexibility in configuration and extensibility because of its plug-in structure and the possibility of customization.
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    Downloads: 12 This Week
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  • 2
    SPINA

    SPINA

    Structure parameter inference approach for endocrine feedback control

    SPINA is software for determining constant structure parameters of endocrine feedback control systems from hormone levels obtained in vivo. The first version of this cybernetic approach allows for evaluating the functional status of the thyroid gland, i.e. thyroid's secretory capacity (GT or SPINA-GT) and sum activity of peripheral deiodinases (GD or SPINA-GD). A second version has been developed for insulin-glucose homeostasis. It delivers the secretory capacity of pancreatic beta...
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    Downloads: 6 This Week
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  • 3

    pexm - JAGS module

    JAGS module for the piecewise exponential distribution

    This new module was built for users interested in a programming language similar to BUGS to fit a Bayesian model based on the piecewise exponential distribution. The module is an extension of the open-source program JAGS. The PE distribution is widely used in the fields of survival analysis and reliability. Currently, it can only be implemented in JAGS through methods to indirectly specify the likelihood based on the Poisson or Bernoulli probabilities. Our module provides a more straightforward...
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  • 4

    libirt

    The new site is at http://psychometricon.net/libirt/

    The new site is at http://psychometricon.net/libirt/ Library of functions to estimate the items and abilities from the responses of subjects to a questionnaire. The IRT models supported are the logistic model, the multivariate logistic model, the graded model and smoothing by penalization and kernel.
    Downloads: 2 This Week
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  • 5
    Barber-cushman model scripted in R
    Downloads: 0 This Week
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  • 6

    BEMoDA

    Dissolution profile comparison Model Dependent-Independent Approach

    Dissolution profile comparison (Biowaiver aid) Model Dependent-Independent Approach scripts for in-vitro dissolution profile comparison as proposed by Sathe et al. in 1996 (Sathe PM, Tsong Y, Shah VP. In-vitro dissolution profile comparison: statistics and analysis, model dependent approach. Pharm Res. 1996 Dec;13(12):1799-803) and Tsong et al. in 1996 (Tsong Y, Hammerstrom T, Sathe P, Shah VP. (1996) Statistical Assessment of Mean Differences between Two Dissolution Data Sets, Drug Info. J. 30...
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  • 7
    Community Detection Modularity Suite

    Community Detection Modularity Suite

    Suite of community detection algorithms based on Modularity

    - MixtureModel_v1r1: overlapping community algorithm [3], which includes novel partition density and fuzzy modularity metrics. - OpenMP versions of algorithms in [1] are available to download. - Main suite containing three community detection algorithms based on the Modularity measure containing: Geodesic and Random Walk edge Betweenness [1] and Spectral Modularity [2]. Collaborator: Theologos Kotsos. [1] M. Newman & M. Girvan, Physical Review, E 69 (026113), 2004. [2] M....
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  • 8

    runjags

    The 'runjags' R package and standalone JAGS extension module

    This package provides high-level interface utilities for MCMC models via Just Another Gibbs Sampler (JAGS), facilitating the use of parallel (or distributed) processors for multiple chains, automated control of convergence and sample length diagnostics, and evaluation of the performance of a model using drop-k validation or against simulated data. Template model specifications can be generated using a standard lme4-style formula interface to assist users less familiar with the BUGS syntax...
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  • 9
    hSDM

    hSDM

    R package for hierarchical species distribution models

    ... their probability of occurrence, and assessing uncertainty in the model results.
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  • 10

    LiDSiM

    LImits of Detection SImulation for Microbes

    LiDSiM is a tool to estimate the possible influence of error-tolerant database searches and proteogenomic approaches on the amount of unidentified spectra and the ratios of taxonomic relationship of identified spectra in MS/MS studies of microbial proteomes. For more details about LiDSiM and its functioning, please see "Estimating the Computational Limits of Detection of Microbial Non-Model Organisms" Mathias Kuhring and Bernhard Y. Renard (http://onlinelibrary.wiley.com/doi/10.1002...
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  • 11
    An implementation of the Kernel-based Orthogonal Projections to Latent Structures (K-OPLS) method for MATLAB and R. The supplied functionality includes e.g. cross-validation, kernel parameter optimization, model diagnostics and plot tools.
    Downloads: 2 This Week
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  • 12

    metabnorm

    A mixed model normalization method for metabolomics data

    In metabolomics the goal is to identify and measure the concentrations of di fferent metabolites (small molecules) in a cell or a biological system. The metabolites form an important layer in the complex metabolic network, and the interactions between di fferent metabolites are often of interest. It is crucial to perform proper normalization of metabolomics data and here we share the code for a normalization approach based on a mixed model, with simultaneous estimation of a correlation matrix...
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  • 13

    BiomeNet

    BAYESIAN INFERENCE OF METABOLIC DIVERGENCE AMONG MICROBIAL COMMUNITIES

    Metagenomics yields enormous numbers of microbial sequences that can be assigned a metabolic function. Using such data to infer community-level metabolic divergence is hindered by the lack of a suitable statistical framework. Here, we describe a novel hierarchical Bayesian model, called BiomeNet (Bayesian inference of metabolic networks), for inferring differential prevalence of metabolic networks among microbial communities. To infer the structure of community-level metabolic interactions...
    Downloads: 1 This Week
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  • 14
    phcfM

    phcfM

    R package for modelling anthropogenic deforestation

    phcfM is an R package for modelling anthropogenic deforestation. It was named after the REDD+ pilot-project 'programme holistique de conservation des forêts à Madagascar'. phcfM includes two main functions: (i) demography(), to model the population growth with time in a hierarchical Bayesian framework using population census data and Gaussian linear mixed models and (ii) deforestation(), to model the deforestation process in a hierarchical Bayesian framework using land-cover change data...
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  • 15
    msBayes allows complex and flexible phylogeographic inference. More specifically, you can test the simultaneous divergence (TSD) of multiple population (species) pairs. It uses approximate Bayesian computation (ABC) under a hierarchical model.
    Downloads: 0 This Week
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  • 16
    Xpose - an S/R based population PK/PD model building aid for NONMEM.
    Downloads: 1 This Week
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  • 17
    MetaBoFlux
    Metaboflux is a generic approach for predicting flux distribution in metabolic networks under multiple and various constraints deducted from the experiments, to increase the biological relevance of the model.
    Downloads: 0 This Week
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  • 18
    BigBang/Horizon is a proteomics data analysis pipeline with focus on the shotgun LC/MSMS workflow.
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  • 19
    My goal is a library for R (www.r-project.org) which encodes concepts relevant to statistical analysis in ecology in relatively easy scalable functions. Includes hierarchical scaling of predictors, density calculations, lme4 model sets, etc...
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  • 20
    Library of functions used to model simple (one dimensional) liquid crystal cells
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  • 21
    A simple ICA model for UK non life insurance
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  • 22

    Hierarchical Stochastic Block Model

    just a bunch of PhD projects

    Development codes for hierarchical stochastic block models
    Downloads: 0 This Week
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  • 23
    GUI for the ISOP R module. The ISOP R module is an implementation of the equal named IRT model by Scheiblechner
    Downloads: 0 This Week
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