|
r-recommenderlab
|
public |
Provides a research infrastructure to develop and evaluate collaborative filtering recommender algorithms. This includes a sparse representation for user-item matrices, many popular algorithms, top-N recommendations, and cross-validation. Hahsler (2022) <doi:10.48550/arXiv.2205.12371>.
|
2026-03-14 |
|
r-weightsvm
|
public |
Functions for subject/instance weighted support vector machines (SVM). It uses a modified version of 'libsvm' and is compatible with package 'e1071'. It also allows user defined kernel matrix.
|
2026-03-14 |
|
r-bst
|
public |
Functional gradient descent algorithm for a variety of convex and non-convex loss functions, for both classical and robust regression and classification problems. See Wang (2011) <doi:10.2202/1557-4679.1304>, Wang (2012) <doi:10.3414/ME11-02-0020>, Wang (2018) <doi:10.1080/10618600.2018.1424635>, Wang (2018) <doi:10.1214/18-EJS1404>.
|
2026-03-14 |
|
logmuse
|
public |
Logging setup tool
|
2026-03-14 |
|
r-monopoly
|
public |
Functions for fitting monotone polynomials to data. Detailed discussion of the methodologies used can be found in Murray, Mueller and Turlach (2013) <doi:10.1007/s00180-012-0390-5> and Murray, Mueller and Turlach (2016) <doi:10.1080/00949655.2016.1139582>.
|
2026-03-14 |
|
r-fclust
|
public |
Algorithms for fuzzy clustering, cluster validity indices and plots for cluster validity and visualizing fuzzy clustering results.
|
2026-03-14 |
|
r-segclust2d
|
public |
Provides two methods for segmentation and joint segmentation/clustering of bivariate time-series. Originally intended for ecological segmentation (home-range and behavioural modes) but easily applied on other series, the package also provides tools for analysing outputs from R packages 'moveHMM' and 'marcher'. The segmentation method is a bivariate extension of Lavielle's method available in 'adehabitatLT' (Lavielle, 1999 <doi:10.1016/S0304-4149(99)00023-X> and 2005 <doi:10.1016/j.sigpro.2005.01.012>). This method rely on dynamic programming for efficient segmentation. The segmentation/clustering method alternates steps of dynamic programming with an Expectation-Maximization algorithm. This is an extension of Picard et al (2007) <doi:10.1111/j.1541-0420.2006.00729.x> method (formerly available in 'cghseg' package) to the bivariate case. The method is fully described in Patin et al (2018) <doi:10.1101/444794>.
|
2026-03-14 |
|
r-codingmatrices
|
public |
A collection of coding functions as alternatives to the standard functions in the stats package, which have names starting with 'contr.'. Their main advantage is that they provide a consistent method for defining marginal effects in factorial models. In a simple one-way ANOVA model the intercept term is always the simple average of the class means.
|
2026-03-14 |
|
r-inflection
|
public |
Implementation of methods Extremum Surface Estimator (ESE) and Extremum Distance Estimator (EDE) to identify the inflection point of a curve . Christopoulos, DT (2014) <doi:10.48550/arXiv.1206.5478> . Christopoulos, DT (2016) <https://demovtu.veltech.edu.in/wp-content/uploads/2016/04/Paper-04-2016.pdf> . Christopoulos, DT (2016) <doi:10.2139/ssrn.3043076> .
|
2026-03-14 |
|
r-knnmi
|
public |
This is a 'C++' mutual information (MI) library based on the k-nearest neighbor (KNN) algorithm. There are three functions provided for computing MI for continuous values, mixed continuous and discrete values, and conditional MI for continuous values. They are based on algorithms by A. Kraskov, et. al. (2004) <doi:10.1103/PhysRevE.69.066138>, BC Ross (2014)<doi:10.1371/journal.pone.0087357>, and A. Tsimpiris (2012) <doi:10.1016/j.eswa.2012.05.014>, respectively.
|
2026-03-14 |
|
clang-tools
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
r-mtlr
|
public |
An implementation of Multi-Task Logistic Regression (MTLR) for R. This package is based on the method proposed by Yu et al. (2011) which utilized MTLR for generating individual survival curves by learning feature weights which vary across time. This model was further extended to account for left and interval censored data.
|
2026-03-14 |
|
libclang
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
clang-18
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
clang
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
libclang13
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
libclang-cpp
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
clang-format
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
clangxx
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
clangdev
|
public |
Development headers and libraries for Clang
|
2026-03-14 |
|
r-rams
|
public |
R-based access to mass-spectrometry (MS) data. While many packages exist to process MS data, many of these make it difficult to access the underlying mass-to-charge ratio (m/z), intensity, and retention time of the files themselves. This package is designed to format MS data in a tidy fashion and allows the user perform the plotting and analysis.
|
2026-03-14 |
|
r-geneset
|
public |
Gene sets are fundamental for gene enrichment analysis. The package 'geneset' enables querying gene sets from public databases including 'GO' (Gene Ontology Consortium. (2004) <doi:10.1093/nar/gkh036>), 'KEGG' (Minoru et al. (2000) <doi:10.1093/nar/28.1.27>), 'WikiPathway' (Marvin et al. (2020) <doi:10.1093/nar/gkaa1024>), 'MsigDb' (Arthur et al. (2015) <doi:10.1016/j.cels.2015.12.004>), 'Reactome' (David et al. (2011) <doi:10.1093/nar/gkq1018>), 'MeSH' (Ish et al. (2014) <doi:10.4103/0019-5413.139827>), 'DisGeNET' (Janet et al. (2017) <doi:10.1093/nar/gkw943>), 'Disease Ontology' (Lynn et al. (2011) <doi:10.1093/nar/gkr972>), 'Network of Cancer Genes' (Dimitra et al. (2019) <doi:10.1186/s13059-018-1612-0>) and 'COVID-19' (Maxim et al. (2020) <doi:10.21203/rs.3.rs-28582/v1>). Gene sets are stored in the list object which provides data frame of 'geneset' and 'geneset_name'. The 'geneset' has two columns of term ID and gene ID. The 'geneset_name' has two columns of terms ID and term description.
|
2026-03-14 |
|
r-sparcl
|
public |
Implements the sparse clustering methods of Witten and Tibshirani (2010), "A framework for feature selection in clustering," published in Journal of the American Statistical Association 105(490): 713-726.
|
2026-03-14 |
|
r-coxrobust
|
public |
An implementation of robust estimation in Cox model. Functionality includes fitting efficiently and robustly Cox proportional hazards regression model in its basic form, where explanatory variables are time independent with one event per subject. Method is based on a smooth modification of the partial likelihood.
|
2026-03-14 |
|
r-bedassle
|
public |
Provides functions that allow users to quantify the relative contributions of geographic and ecological distances to empirical patterns of genetic differentiation on a landscape. Specifically, we use a custom Markov chain Monte Carlo (MCMC) algorithm, which is used to estimate the parameters of the inference model, as well as functions for performing MCMC diagnosis and assessing model adequacy.
|
2026-03-14 |
