Search Results for "bayesian"
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Showing 25 open source projects for "bayesian"
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Bayesian Statistics
This repository holds slides and code for a full Bayesian statistics
This repository holds slides and code for a full Bayesian statistics graduate course. Bayesian statistics is an approach to inferential statistics based on Bayes' theorem, where available knowledge about parameters in a statistical model is updated with the information in observed data. The background knowledge is expressed as a prior distribution and combined with observational data in the form of a likelihood function to determine the posterior distribution. -
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Bayesian Optimization
Python implementation of global optimization with gaussian processes
This is a constrained global optimization package built upon bayesian inference and gaussian process, that attempts to find the maximum value of an unknown function in as few iterations as possible. This technique is particularly suited for optimization of high cost functions, situations where the balance between exploration and exploitation is important. More detailed information, other advanced features, and tips on usage/implementation can be found in the examples folder. -
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ReactiveMP.jl
High-performance reactive message-passing based Bayesian engine
ReactiveMP.jl is a Julia package that provides an efficient reactive message passing based Bayesian inference engine on a factor graph. The package is a part of the bigger and user-friendly ecosystem for automatic Bayesian inference called RxInfer. While ReactiveMP.jl exports only the inference engine, RxInfer provides convenient tools for model and inference constraints specification as well as routines for running efficient inference both for static and real-time datasets. -
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BAT.jl
A Bayesian Analysis Toolkit in Julia
Welcome to BAT, a Bayesian analysis toolkit in Julia. BAT.jl offers a variety of posterior sampling, mode estimation and integration algorithms, supplemented by plotting recipes and I/O functionality. BAT.jl originated as a rewrite/redesign of BAT, the Bayesian Analysis Toolkit in C++. BAT.jl now offer a different set of functionality and a wider variety of algorithms than its C++ predecessor. -
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ArviZ.jl
Exploratory analysis of Bayesian models with Julia
ArviZ.jl (pronounced "AR-vees") is a Julia package for exploratory analysis of Bayesian models. It includes functions for posterior analysis, model checking, comparison and diagnostics. -
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DiffEqBayes.jl
Extension functionality which uses Stan.jl, DynamicHMC.jl
This repository is a set of extension functionality for estimating the parameters of differential equations using Bayesian methods. It allows the choice of using CmdStan.jl, Turing.jl, DynamicHMC.jl and ApproxBayes.jl to perform a Bayesian estimation of a differential equation problem specified via the DifferentialEquations.jl interface. -
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ProbNumDiffEq.jl
Probabilistic Numerical Differential Equation solvers via Bayesian fil
ProbNumDiffEq.jl provides probabilistic numerical ODE solvers to the DifferentialEquations.jl ecosystem. The implemented ODE filters solve differential equations via Bayesian filtering and smoothing. The filters compute not just a single point estimate of the true solution, but a posterior distribution that contains an estimate of its numerical approximation error. -
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ggstatsplot
Enhancing {ggplot2} plots with statistical analysis
...In a typical exploratory data analysis workflow, data visualization and statistical modeling are two different phases: visualization informs modeling, and modeling in its turn can suggest a different visualization method, and so on and so forth. Bayesian hypothesis-testing. The central idea of {ggstatsplot} is simple: combine these two phases into one in the form of graphics with statistical details, which makes data exploration simpler and faster. Summary of statistical tests and effect sizes. -
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brms
brms R package for Bayesian generalized multivariate models using Stan
brms is an R package by Paul Bürkner which provides a high-level interface for fitting Bayesian multilevel (i.e. mixed effects) models, generalized linear / non-linear / multivariate models using Stan as the backend. It allows R users to specify complex Bayesian models using formula syntax similar to lme4 but with far more flexibility (distributions, link functions, hierarchical structure, nonlinear terms, etc.). It supports model diagnostics, posterior predictive checking, model comparison, custom priors, and advanced features such as distributional regression. -
MongoDB Atlas runs apps anywhereMongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
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DynamicHMC
Implementation of robust dynamic Hamiltonian Monte Carlo methods
Implementation of robust dynamic Hamiltonian Monte Carlo methods in Julia. In contrast to frameworks that utilize a directed acyclic graph to build a posterior for a Bayesian model from small components, this package requires that you code a log-density function of the posterior in Julia. Derivatives can be provided manually, or using automatic differentiation. Consequently, this package requires that the user is comfortable with the basics of the theory of Bayesian inference, to the extent of coding a (log) posterior density in Julia. ... -
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CausalInference.jl
Causal inference, graphical models and structure learning in Julia
Julia package for causal inference and analysis, graphical models and structure learning. This package contains code for the PC algorithm and the extended FCI algorithm, the score based greedy equivalence search (GES) algorithm, the Bayesian Causal Zig-Zag sampler and a function suite for adjustment set search. -
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see
Visualisation toolbox for beautiful and publication-ready figures
see is an R package that serves as the visualization component of the easystats ecosystem, providing plotting utilities to produce publication-ready visualizations of statistical model parameters, diagnostics, predictions, and performance metrics. It works in conjunction with other easystats packages (such as parameters, performance, modelbased, bayestestR, etc.) to convert model outputs or summary objects into visual forms (dot-and-whisker plots, diagnostic plots, residual plots, etc.). It... -
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awesome-single-cell
Community-curated list of software packages and data resources
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc. List of software packages (and the people developing these methods) for single-cell data analysis, including RNA-seq, ATAC-seq, etc. Rapid, accurate and memory-frugal preprocessing of single-cell and single-nucleus RNA-seq data. Find bimodal, unimodal, and multimodal features in your data. Ascend is an R package comprised of fast, streamlined analysis functions optimized to... -
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Bayesian Julia
Bayesian Statistics using Julia and Turing
Bayesian statistics incorporate uncertainty (and prior knowledge) by allowing probability statements about parameters. -
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R packages (maintained by YJLEE)
R packages for PK/PD modeling , BE/BA, drug stability, ivivc, etc.
These R packages are developed for data analysis of PK/PD modeling & simulation, bioequivalence/bioavailability (BE/BA), drug stability, in-vitro and in-vivo correlation (ivivc), as well as therapeutic drug monitoring (TDM). -
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HMMBase.jl
Hidden Markov Models for Julia
HMMBase is not maintained anymore. It will keep being available as a Julia package but we encourage existing and new users to migrate to HiddenMarkovModels.jl which offers a similar interface. For more information see HiddenMarkovModels.jl: when did HMMs get so fast?. HMMBase provides a lightweight and efficient abstraction for hidden Markov models in Julia. Most HMMs libraries only support discrete (e.g. categorical) or Normal distributions. In contrast HMMBase builds upon Distributions.jl... -
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Pyclamp
A Python package used to extract and analyse electrophysiological data
...Presently, Pyclamp is designed to perform very specific forms of analysis on evoked synaptic responses: Data analysis (under development) : This is a highly user-interactive en-vironment that can be used to discriminate synaptic events, obtain various measures of their kinetics and size, and output the results. Quantal analysis : This part of the package performs simple variance-mean analysis and Bayesian quantal analysis to estimate the quantal sizea dn number of release sites among other measures. -
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Bayesian Network tools in Java (BNJ) is an open-source suite of software tools for research and development using graphical models of probability. It is published by the Kansas State University Laboratory for Knowledge Discovery in Databases (KDD).
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JProGraM (PRObabilistic GRAphical Models in Java) is a statistical machine learning library. It supports statistical modeling and data analysis along three main directions: (1) probabilistic graphical models (Bayesian networks, Markov random fields, dependency networks, hybrid random fields); (2) parametric, semiparametric, and nonparametric density estimation (Gaussian models, nonparanormal estimators, Parzen windows, Nadaraya-Watson estimator); (3) generative models for random networks (small-world, scale-free, exponential random graphs, Fiedler random fields), subgraph sampling algorithms (random walk, snowball, etc.), and spectral decomposition.
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imDEV
Tools for multivariate data visualization, exploration and analysis.
You may also like some newer work: http://createdatasol.com/ Project imDEV is an application of RExcel, which seamlessly integrates Excel and R for tasks focused on multivariate data visualization, exploration, and analysis. Interactive modules for dimensional reduction (imPCA), prediction (imPLS), feature selection, analysis of correlation (imCorrelations) and generation of networked structures (imGraph) provide an integrated environment for systems level analysis of multivariate data. -
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BIL++ is a set of standalone C++ packages for data processing in Bioinformatics (Graph mining, Bayesian networks, Genetic algorithm, Discretization, Gene expression data analysis, Hypothesis testing).
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The project Environment of Crime is a generic interface to visualize and present social data and crime satistics from Berlin (Germany). Bayesian algorithms are used to extract relevant information.
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The application Crimeblips provides up-to-date crime statistics for Berlin (Germany). It maps and visualizes crimes, allowing users to identify crime hot spots, trends and general patterns. Bayesian algorithms are used to extract relevant information.
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