The graphical approach is proposed as a general framework for clinical trial designs involving multiple hypotheses, where decisions are made only based on the observed marginal p-values. A reverse graphical approach starts from a set of singleton graphs, and gradually add vertices into graphs until rejection of a set of hypotheses is made. See Gou, J. (2020). Reverse graphical approaches for multiple test procedures. Technical Report.
Additional matrix functionality for R including: (1) wrappers for the base matrix function that allow matrices to be created from character strings and lists (the former is especially useful for creating block matrices), (2) better printing of large matrices via the generic "pretty" print function, and (3) a number of convenience functions for users more familiar with other scientific languages like Julia', Matlab'/'Octave', or Python'+'NumPy'.
This package provides a DBI compliant backend for Trino <https://trino.io>, the distributed SQL query engine (successor of PrestoSQL'). Connects to a Trino cluster over its HTTP REST API, executes queries with automatic pagination, maps Trino types to R types, and integrates with dplyr through dbplyr SQL dialects. Supports basic, JSON Web Token (JWT) bearer and OAuth2 client credentials authentication, as well as custom certificate authorities.
R interface to CPLEX solvers for linear, quadratic, and (linear and quadratic) mixed integer programs. Support for quadratically constrained programming is available. See the file "INSTALL" for details on how to install the Rcplex package in Linux/Unix-like and Windows systems. Support for sparse matrices is provided by an S3-style class "simple_triplet_matrix" from package slam and by objects from the Matrix package class hierarchy.
This package provides a tidy interface to the COROS Training Hub API (<https://coros.com/traininghub>), the web platform that accompanies COROS GPS sports watches. Retrieves activities, daily wellness metrics (heart rate variability, resting heart rate, VO2 max and training load), workout programmes and training calendars. All results are returned as tibbles, ready for analysis with dplyr and ggplot2'. Both the US and EU regional endpoints are supported.
This package is an extension to the testthat package that makes it easy to add graphical unit tests. It provides a Shiny application to manage the test cases.
This package provides a dataset with an uneven number of cases in each class is said to be unbalanced. Many models produce a subpar performance on unbalanced datasets.
Look up the username and full name of the current user, the current user's email address and GitHub username, using various sources of system and configuration information.
Functions and examples are provided for transmission/disequilibrium tests for extended marker haplotypes, as in Clayton, D. and Jones, H. (1999) "Transmission/disequilibrium tests for extended marker haplotypes".
This package provides functionality for creating Quantile-Quantile (QQ) and Probability-Probability (PP) plots with simultaneous testing bands to asses significance of sample deviation from a reference distribution.
This package provides functions for numerical analysis and linear algebra, numerical optimization, differential equations, plus some special functions. It uses Matlab function names where appropriate to simplify porting.
Per-channel variance stabilization from a collection of flow cytometry samples by Bertlett test for homogeneity of variances. The approach is applicable to microarrays data as well.
The miaViz package implements functions to visualize TreeSummarizedExperiment objects especially in the context of microbiome analysis. Part of the mia family of R/Bioconductor packages.
Package performs summarization of replicates, filtering by frequency, several different options for imputing missing data, and a variety of options for transforming, batch correcting, and normalizing data.
The pRoloc package implements machine learning and visualisation methods for the analysis and interogation of quantitiative mass spectrometry data to reliably infer protein sub-cellular localisation.
traseR performs GWAS trait-associated SNP enrichment analyses in genomic intervals using different hypothesis testing approaches, also provides various functionalities to explore and visualize the results.
Interfaces the asleep python module <https://github.com/OxWearables/asleep> from Yuan (2024) <doi:10.1038/s41746-024-01148-y> to estimate sleep from accelerometry data.
Create Tables for Reporting Clinical Trials. Calculates descriptive statistics and hypothesis tests, arranges the results in a table ready for reporting with LaTeX, HTML or Word.
This package performs treatment wetland modeling consistent with the original Excel spreadsheet and VBA code version of DMSTA2 developed by Dr. Bill Walker <http://wwwalker.net/dmsta/>.
Fast functions for effective sample size, weighted multivariate mean, variance, and quantile computation, and weight diagnostic plot for generic importance sampling type or other probability weighted samples.
Package for Genetic Epidemiologic Methods Developed at MSKCC. It contains functions to calculate haplotype specific odds ratio and the power of two stage design for GWAS studies.
This package provides functions to compute generalized eigenvalues and eigenvectors, the generalized Schur decomposition and the generalized Singular Value Decomposition of a matrix pair, using Lapack routines.
This package provides methods to perform and analyse I-prior regression models. Estimation is done either via direct optimisation of the log-likelihood or an EM algorithm.