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r-dbemplikenorm
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public |
Test for joint assessment of normality
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2025-04-22 |
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r-cytobankbridger
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public |
A collection of tools that leverage the CytobankAPI R package <https://cran.r-project.org/web/packages/CytobankAPI/vignettes/cytobank-quickstart.html> to complete more complex workflows, and add/extend various Cytobank features.
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2025-04-22 |
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r-direct
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public |
A Bayesian clustering method for replicated time series or replicated measurements from multiple experimental conditions, e.g., time-course gene expression data. It estimates the number of clusters directly from the data using a Dirichlet-process prior. See Fu, A. Q., Russell, S., Bray, S. and Tavare, S. (2013) Bayesian clustering of replicated time-course gene expression data with weak signals. The Annals of Applied Statistics. 7(3) 1334-1361. <doi:10.1214/13-AOAS650>.
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2025-04-22 |
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r-diptest
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public |
Compute Hartigan's dip test statistic for unimodality / multimodality and provide a test with simulation based p-values, where the original public code has been corrected.
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2025-04-22 |
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r-dime
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public |
A robust differential identification method that considers an ensemble of finite mixture models combined with a local false discovery rate (fdr) to analyze ChIP-seq (high-throughput genomic)data comparing two samples allowing for flexible modeling of data.
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2025-04-22 |
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r-dils
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public |
Combine multiple-relationship networks into a single weighted network. The approach is similar to factor analysis in the that contribution from each constituent network varies so as to maximize the information gleaned from the multiple-relationship networks. This implementation uses Principal Component Analysis calculated using 'prcomp' with bootstrap subsampling. Missing links are imputed using the method of Chen et al. (2012).
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2025-04-22 |
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r-diffusr
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public |
Implementation of network diffusion algorithms such as heat diffusion or Markov random walks. Network diffusion algorithms generally spread information in the form of node weights along the edges of a graph to other nodes. These weights can for example be interpreted as temperature, an initial amount of water, the activation of neurons in the brain, or the location of a random surfer in the internet. The information (node weights) is iteratively propagated to other nodes until a equilibrium state or stop criterion occurs.
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2025-04-22 |
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r-diffobj
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public |
Generate a colorized diff of two R objects for an intuitive visualization of their differences.
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2025-04-22 |
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r-dicekriging
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public |
Estimation, validation and prediction of kriging models. Important functions : km, print.km, plot.km, predict.km.
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2025-04-22 |
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r-dicedesign
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public |
Space-Filling Designs and Uniformity Criteria.
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2025-04-22 |
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r-dhsic
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public |
Contains an implementation of the d-variable Hilbert Schmidt independence criterion and several hypothesis tests based on it, as described in Pfister et al. (2017) <doi:10.1111/rssb.12235>.
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2025-04-22 |
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r-dgof
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public |
This package contains a proposed revision to the stats::ks.test() function and the associated ks.test.Rd help page. With one minor exception, it does not change the existing behavior of ks.test(), and it adds features necessary for doing one-sample tests with hypothesized discrete distributions. The package also contains cvm.test(), for doing one-sample Cramer-von Mises goodness-of-fit tests.
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2025-04-22 |
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r-dglars
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public |
Differential geometric least angle regression method for fitting sparse generalized linear models. In this version of the package, the user can fit models specifying Gaussian, Poisson, Binomial, Gamma and Inverse Gaussian family. Furthermore, several link functions can be used to model the relationship between the conditional expected value of the response variable and the linear predictor. The solution curve can be computed using an efficient predictor-corrector or a cyclic coordinate descent algorithm, as described in the paper linked to via the URL below.
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2025-04-22 |
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r-dfphase1
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public |
Statistical methods for retrospectively detecting changes in location and/or dispersion of univariate and multivariate variables. Data values are assumed to be independent, can be individual (one observation at each instant of time) or subgrouped (more than one observation at each instant of time). Control limits are computed, often using a permutation approach, so that a prescribed false alarm probability is guaranteed without making any parametric assumptions on the stable (in-control) distribution.
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2025-04-22 |
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r-dfmta
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public |
Phase I/II adaptive dose-finding design for single-agent Molecularly Targeted Agent (MTA), according to the paper "Phase I/II Dose-Finding Design for Molecularly Targeted Agent: Plateau Determination using Adaptive Randomization", Riviere Marie-Karelle et al. (2016) <doi:10.1177/0962280216631763>.
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2025-04-22 |
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r-dfcomb
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public |
Phase I/II adaptive dose-finding design for combination studies where toxicity rates are supposed to increase with both agents.
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2025-04-22 |
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r-devoid
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public |
Provides a non-drawing graphic device for benchmarking purpose. In order to properly benchmark graphic drawing code it is necessary to factor out the device implementation itself so that results are not related to the specific graphics device used during benchmarking. The 'devoid' package implements a graphic device that accepts all the required calls from R's graphic engine but performs no action. Apart from benchmarking it is unlikely that this device has any practical use.
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2025-04-22 |
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r-devemf
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public |
Output graphics to EMF+/EMF.
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2025-04-22 |
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r-detsel
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public |
In the new era of population genomics, surveys of genetic polymorphism ("genome scans") offer the opportunity to distinguish locus-specific from genome wide effects at many loci. Identifying presumably neutral regions of the genome that are assumed to be influenced by genome-wide effects only, and excluding presumably selected regions, is therefore critical to infer population demography and phylogenetic history reliably. Conversely, detecting locus-specific effects may help identify those genes that have been, or still are, targeted by natural selection. The software package DetSel has been developed to identify markers that show deviation from neutral expectation in pairwise comparisons of diverging populations.
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2025-04-22 |
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r-detr
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public |
DetLTS, DetMM (and DetS) Algorithms for Deterministic, Robust Linear Regression.
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2025-04-22 |
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r-detmcd
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public |
Implementation of DetMCD, a new algorithm for robust and deterministic estimation of location and scatter. The benefits of robust and deterministic estimation are explained in Hubert, Rousseeuw and Verdonck (2012) <doi:10.1080/10618600.2012.672100>.
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2025-04-22 |
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r-desolve
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public |
Functions that solve initial value problems of a system of first-order ordinary differential equations ('ODE'), of partial differential equations ('PDE'), of differential algebraic equations ('DAE'), and of delay differential equations. The functions provide an interface to the FORTRAN functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK' collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk' and a C-implementation of solvers of the 'Runge-Kutta' family with fixed or variable time steps. The package contains routines designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D partial differential equations ('PDE') that have been converted to 'ODEs' by numerical differencing.
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2025-04-22 |
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r-descr
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public |
Weighted frequency and contingency tables of categorical variables and of the comparison of the mean value of a numerical variable by the levels of a factor, and methods to produce xtable objects of the tables and to plot them. There are also functions to facilitate the character encoding conversion of objects, to quickly convert fixed width files into csv ones, and to export a data.frame to a text file with the necessary R and SPSS codes to reread the data.
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2025-04-22 |
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r-dequer
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public |
Queues, stacks, and 'deques' are list-like, abstract data types. These are meant to be very cheap to "grow", or insert new objects into. A typical use case involves storing data in a list in a streaming fashion, when you do not necessarily know how may elements need to be stored. Unlike R's lists, the new data structures provided here are not necessarily stored contiguously, making insertions and deletions at the front/end of the structure much faster. The underlying implementation is new and uses a head/tail doubly linked list; thus, we do not rely on R's environments or hashing. To avoid unnecessary data copying, most operations on these data structures are performed via side-effects.
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2025-04-22 |
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r-depmix
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public |
Fits (multigroup) mixtures of latent or hidden Markov models on mixed categorical and continuous (timeseries) data. The Rdonlp2 package can optionally be used for optimization of the log-likelihood and is available from R-forge.
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2025-04-22 |
