Provide addins for RStudio'. It currently contains 3 addins. The first to add a shortcut for the double pipe. The second is to add a shortcut for the same operator. And the third to simplify the creation of vectors from texts pasted from the computer transfer area.

It contains functions to apply blockmodeling of signed (positive and negative weights are assigned to the links), one-mode and valued one-mode and two-mode (two sets of nodes are considered, e.g. employees and organizations) networks (Brusco et al. (2019) <doi:10.1111/bmsp.12192>).

Simulating and conducting four phase 12 clinical trials with correlated binary bivariate outcomes described. Uses the Efftox (efficacy and toxicity tradeoff, <https://biostatistics.mdanderson.org/SoftwareDownload/SingleSoftware/Index/2>) and SPSO (Semi-Parametric Stochastic Ordering) models with Utility and Desirability based objective functions for dose finding.

This package provides a simple tool for numerical optimization on the unit sphere. This is achieved by combining the spherical coordinating system with L-BFGS-B optimization. This algorithm is implemented in Kolkiewicz, A., Rice, G., & Xie, Y. (2020) <doi:10.1016/j.jspi.2020.07.001>.

The Patient Rule Induction Method (PRIM) is typically used for "bump hunting" data mining to identify regions with abnormally high concentrations of data with large or small values. This package extends this methodology so that it can be applied to binary classification problems and used for prediction.

Visual representations of model fit or predictive success in the form of "separation plots." See Greenhill, Brian, Michael D. Ward, and Audrey Sacks. "The separation plot: A new visual method for evaluating the fit of binary models." American Journal of Political Science 55.4 (2011): 991-1002.

The function TailClassifier() suggests one of the following types of tail for your discrete data: 1) Power decaying tail; 2) Sub-exponential decaying tail; and 3) Near-exponential decaying tail. The function also provides an estimate of the parameter for the classified-distribution as a reference.

This package provides an alternative interface to Bioconductor annotation resources, in particular the gene identifier mapping functionality of the org packages (e.g., org.Hs.eg.db) and the genome coordinate functionality of the TxDb packages (e.g., TxDb.Hsapiens.UCSC.hg38.knownGene).

Graph alignment is an extension package for the R programming environment which provides functions for finding an alignment between two networks based on link and node similarity scores. (J. Berg and M. Laessig, "Cross-species analysis of biological networks by Bayesian alignment", PNAS 103 (29), 10967-10972 (2006)).

Several tools for analyzing diagnostic tests and 2x2 contingency tables are provided. In particular, positive and negative predictive values for a diagnostic tests can be calculated from prevalence, sensitivity and specificity values. For contingency tables, relative risk and odds ratio measures are estimated. Furthermore, confidence intervals are provided.

Markov chain Monte Carlo (MCMC) sampler for fully Bayesian estimation of latent factor stochastic volatility models with interweaving <doi:10.1080/10618600.2017.1322091>. Sparsity can be achieved through the usage of Normal-Gamma priors on the factor loading matrix <doi:10.1016/j.jeconom.2018.11.007>.

The weighted scores method and composite likelihood information criteria as an intermediate step for variable/correlation selection for longitudinal ordinal and count data in Nikoloulopoulos, Joe and Chaganty (2011) <doi:10.1093/biostatistics/kxr005>, Nikoloulopoulos (2016) <doi:10.1002/sim.6871> and Nikoloulopoulos (2017) <arXiv:1510.07376>.

This package includes size measurements, clutch observations, and blood isotope ratios for adult foraging Adélie, Chinstrap, and Gentoo penguins observed on islands in the Palmer Archipelago near Palmer Station, Antarctica. Data were collected and made available by Dr. Kristen Gorman and the Palmer Station Long Term Ecological Research (LTER) Program.

Oedipus Lex is a lexer generator in the same family as Rexical and Rex. It is based primarily on generating code much like you would a hand-written lexer. It uses StrScanner within a multi-level case statement. As such, Oedipus matches on the first match, not the longest.

This gem provides the classes LinkHeader and LinkHeader::Link, which represent HTTP Link headers conforming to RFC 5988. Objects can be constructed from and converted to text or a JSON-friendly Array representation. They can also be used to generate corresponding HTML link elements.

The ragged2e package defines new commands \Centering, \RaggedLeft, and \RaggedRight and new environments Center, FlushLeft, and FlushRight, which set ragged text and are easily configurable to allow hyphenation (the corresponding commands in LaTeX, all of whose names are lower-case, prevent hyphenation altogether).

This package contains a collection of trans-omics datasets generated using various sequencing technologies such as RNA-seq, Mass spectrometry and ChIP-seq. Modalities include the bulk profiling of the phosphoproteome, proteome, transcriptome and epigenome. Data reflects the timecourses of different developmental systems from the mouse or human.

This package implements the semiparametric efficient estimators of continuous-time causal models for time-varying treatments and confounders in the presence of dependent censoring (including structural failure time model and Cox proportional hazards marginal structural model). S. Yang, K. Pieper, and F. Cools (2019) <doi:10.1111/biom.12845>.

Econometric analysis of multiple-input-multiple-output production technologies with ray-based input distance functions as suggested by Price and Henningsen (2022): "A Ray-Based Input Distance Function to Model Zero-Valued Output Quantities: Derivation and an Empirical Application", <https://ideas.repec.org/p/foi/wpaper/2022_03.html>.

Quality of care is compared across accountable entities, including hospitals, provider groups, and insurance plans, using standardized quality measures. However, observed variations in quality measure performance might be the result of chance sampling or measurement errors. Contains functions for estimating the reliability of unadjusted and risk-standardized quality measures.

This package provides functions to parse and analyze logs generated by ShinyProxy containers. It extracts metadata from log file names, reads log contents, and computes summary statistics (such as the total number of lines and lines containing error messages), facilitating efficient monitoring and debugging of ShinyProxy deployments.

Pacote para a analise de experimentos com um ou dois fatores com testemunhas adicionais conduzidos no delineamento inteiramente casualizado ou em blocos casualizados. "Package for the analysis of one or two-way experiments with additional controls conducted in a completely randomized design or in a randomized block design".

This package allows the user to create, manipulate, and visualize splicing graphs and their bubbles based on a gene model for a given organism. Additionally it allows the user to assign RNA-seq reads to the edges of a set of splicing graphs, and to summarize them in different ways.

This package provides a developer-facing interface to the Arrow Database Connectivity ('ADBC') PostgreSQL driver for the purposes of building high-level database interfaces for users. ADBC <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses Arrow for result sets and query parameters.