Software Map
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ANOVA Bayesian Bioinformatics Bioinformatics & Biostatistics Biostatistics C++ Cancer Chemoinformatics Classification Clustering Copynumber DNA Ecology Economics Finance GUI Genetic Algorithms Genetics HTML Machine Learning Machine learning Mixture Multiple Comparisons Multivariate Analysis Multivariate Regression Multivariate Techniques Next generation Sequencing ODE Phylogeny R RForge Rcmdr Regression SNP Time series Visualization Wholegenome bioinformatics biostatistics break detection categorical change detection classification clustering community ecology data mining database datasets dissimilarity distance distributions diversity dynamic systems ecological models ecology econometrics epidemiology finance gene expression generalized linear models genetics graphics high dimentional data inference likelihood linear models linear programming machine learning microarray missing data mixed effect models mixed model model comparison model estimation model selection movement multivariate multivariate regression multivariate statistics nonlinear models nonparametric optimization permutation tests phylogeny plotting political analysis prediction psychology raster regression reporting robust robust statistics simulation social networks soil spatial spatial autocorrelation spatial classes spatial data spatial methods spatial point patterns spatial regression spatiotemporal species distribution models survival teaching text mining time series visualization
25 projects in result set. Displaying 20 projects per page. Projects sorted by alphabetical order.
<1> <2>
ANN  This package provides a feedforward Artificial Neural Network (ANN) optimized by Genetic Algorithm (GA).  
Tags: Artificial Neural Network, Machine Learning, C++, Finance, Genetic Algorithms, R  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20111209 18:43 
An R wrapper for PostgreSQL's libpq  This package provides easy access to advanced features of a PostgreSQL database. Key features include simple management of database cursors and asynchronous query processing, as well as R object serialization to and from a PostgreSQL database.  
Tags: C++, PostgreSQL, database  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20140630 17:00 
Boost C++ Template Library Project  Boost provides free peerreviewed portable C++ source libraries implemented mostly as templates. We place a subset of them in this package as a more efficient distribution system for CRAN.  
Tags: Boost, C++, library, libraries, programming  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20120902 22:26 
CNAV  A hidden Markov model approach is used to infer frequencies and haplotype phases of genotypes containing joint allelic and copynumber variation to be used in association studies.  
Tags: Markov model, serial tempering, Gibbs sampling, Bayesian, Bioinformatics, Boost, C++, Genetics, bioinformatics, biostatistics, sampling  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20130508 14:18 
ClustMMDD  This package deals with the twofold problem of variable selection and clustering by mixture of multinomial models for discrete data. Genotype data are examples of such data with two unordered observations (alleles) at each locus for diploid individual.  
Tags: C++, Clustering, EM, Rcpp  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20150518 21:25 
Clusterwise Effect Regression  This software implements an algorithm that proposes variable clustering within high dimensional linear and probit regression models. The estimation strategy is based on mixed Gibbs Sampling and Stochastic EM algorithm.  
Tags: C++, Clustering, biostatistics, high dimentional data, multivariate regression, regression  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20130820 09:47 
Finite Mixure of AFT and FMR models  FMRS package provides estimation and variable selection in Finite Mixture of Accelerated Failure Time Regression (FMAFTR) and Finite Mixture of Regression (FMR) models with a large number of covariates and/or right censoring and heterogeneous structure.  
Tags: Bioinformatics, Biostatistics, C++, Cancer, Medical Science, Mixture, Next generation Sequencing, R, Regression, Statistics, lasso, model estimation, model selection, penalized regression, regularization, survival, tuning parameters, variable selection  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20160307 02:31 
Funclustering  This project is for creating an R package which proposes a modelbased clustering algorithm for multivariate functional data. The package perform also functional PCA for univariate or multivariate functional data with differents weigths for each curves.  
Tags: functional data, clustering, multivariate functional pca, EM, C++, Clustering, functional data analysis  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20130805 16:38 
Low Rank Gaussian Process Regression  Fit a Low Rank Gaussian Process Regression / Linear Mixed Model for large datasets. These models are widely used in statistical genetics as a test of association while correcting for the confounding effects of kinship and population structure.  
Tags: C++, Genetics, high performance computing, R, Regression, parallel computing  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20131219 15:12 
MPAgenomics  This package contains an implementation of the lars algorithm for the lasso and fusion penalization. It works even if the number of covariate is greater than the number of individuals.  
Tags: lasso, lars, sparse linear model, C++, genomic, Bioinformatics, Multivariate Analysis, Multivariate Regression, high dimentional data, low sample size high dimensional data, penalized regression  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20130418 16:20 
Markov decision processes (MDPs) in R  Create and optimize MDPs with discrete time steps and state space. Both normal MDPs and hierarchical MDPs can be considered.  
Tags: markov, optimization, stochastic, C++  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20090608 12:06 
ODE Solvers Compiled OnDemand  The odeintr package generates compiled ODE solvers ondemand. It uses the Boost odeint library and Rcpp.  
Tags: C++, Ecology, Economics, Fast, Fisheries, Forestry, HPC, ODE, R, Rcpp, dynamic systems, ecological models, ordinary differential equations, simulation, solver  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20150506 21:14 
Polyphase  This method accepts the genotype data, the relative physical position of the markers for species of any ploidy and returns the phased output.  
Tags: Bioinformatics & Biostatistics, Boost, C++, Plant Breeding, Plant Genomics  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20160218 15:57 
ProbeAnnotator  Simple and efficient functions for the annotation of genomic platforms (e.g. Illumina, Affymetrix) using SAM alignment files or chromosomal location.  
Tags: Platform Annotation, Probe Annotation, Bioinformatics, Bioinformatics & Biostatistics, C++, Genetics  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20140729 13:16 
R integration for the stk++ library  STK++ is a versatile, fast, reliable and elegant collection of C++ classes for statistics. Using rtkpp, R users and package developers will not need to install STK++ itself in order to use the library.  
Tags: Rcpp, Linear Algebra, Clustering, classification, clustering, C++, library  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 86 Activity Ranking: 10 Registered: 20140806 20:09 
RHmm  Simulations and estimations of discrete, univariate or multivariate gaussian, mixture of univariate or multivariate gaussian hidden Markov models.  
Tags: C++, R  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20071022 08:05 
Rcpp  Seamless R and C++ Integration  The Rcpp package provides a C++ library which facilitates the integration of R and C++. R data types (SEXP) are matched to C++ objects in a class hierarchy. All R types are supported and each type is mapped to a dedicated class.  
Tags: C++, R, library  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20080301 16:33 
RcppProgress  This package allows to display a progress bar in the R console for long running computations taking place in c++ code, and provides support for interrupting those computations even in a multithreaded code  
Tags: C++, package development  

Activity Percentile: 0 Activity Ranking: 0 Registered: 20130507 16:44 
Rollply  Rollply is an addon to facilitate movingwindow computations. It is based on plyr, has a very similar syntax and takes advantage of its capacities (progress report, parallel computations, etc.).  
Tags: moving window, plyr, data.frame, C++, R, data, datasets  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20141028 16:05 
ShapeRestricted Regression  https://sites.google.com/site/coneprojection/  
Tags: nonparametric, shaperestricted regression, C++  
This project has not yet categorized itself in the Trove Software Map  Activity Percentile: 0 Activity Ranking: 0 Registered: 20160629 13:30 
25 projects in result set. Displaying 20 projects per page. Projects sorted by alphabetical order.
<1> <2>