This package provides tools for assessing data quality, performing exploratory analysis, and semi-automatic preprocessing of messy data with change tracking for integral dataset cleaning.

Integrated differential expression (DE) and differential co-expression (DC) analysis on gene expression data based on DECODE (DifferEntial CO-expression and Differential Expression) algorithm.

Fits, bootstraps, and evaluates two-component normal and lognormal mixture models. Includes diagnostic plots and statistical evaluation of mixture model fits using differential evolution optimization.

Wrapper for the ggplot2 package that creates a variety of common charts (e.g. bar, line, area, ROC, waterfall, pie) while aiming to reduce typing.

The cointegration based support vector regression model enables researchers to use data obtained from the cointegrating vector as input in the support vector regression model.

Four graph-based tests are provided for testing whether two samples are from the same distribution. It works for both continuous data and discrete data.

Design of group sequential trials, including non-binding futility analysis at multiple time points (Gallo, Mao, and Shih, 2014, <doi:10.1080/10543406.2014.932285>).

This package provides datasets for the book "Introduction to Statistical Data Analysis for the Life Sciences, Second edition" by Ekstrøm and Sørensen (2014).

This package provides a set of fast, chainable image-processing operations which are applicable to images of two, three or four dimensions, particularly medical images.

Introduces in-sample, out-of-sample, pseudo out-of-sample, and benchmark model forecast tests and a new class for working with forecast data, Forecast.

This package provides functions for obtaining the density, random deviates and maximum likelihood estimates of the Poisson lognormal distribution and the bivariate Poisson lognormal distribution.

Confidence intervals and point estimation for R under various parametric model assumptions; likelihood inference based on classical first-order approximations and higher-order asymptotic procedures.

Performant interactive scatterplot for ~ 1 million points. Zoom, pan, and pick points. Includes tooltips, labels, a grid overlay, legend, and coupled interactions across multiple plots.

Fast and Accurate Randomized Singular Value Decomposition (RSVD) methods proposed in the PCAone paper by Li (2023) <https://genome.cshlp.org/content/33/9/1599>.

Create PX-files from scratch or read and modify existing ones. Includes a function for every PX keyword, making metadata manipulation simple and human-readable.

This package implements the smooth LASSO estimator for the function-on-function linear regression model described in Centofanti et al. (2020) <arXiv:2007.00529>.

Get statistics and reports from YouTube. To learn more about the YouTube Analytics and Reporting API, see <https://developers.google.com/youtube/reporting/>.

Probability functions, family for glm() and Stan code for working with the unifed distribution (Quijano Xacur, 2019; <doi:10.1186/s40488-019-0102-6>).

This package provides R functions to draw lines and curves with the width of the curve allowed to vary along the length of the curve.

The parody package provides routines for univariate and multivariate outlier detection with a focus on parametric methods, but support for some methods based on resistant statistics.

This package provides routines for parsing Affymetrix data files based upon file format information. The primary focus is on accessing the CEL and CDF file formats.

SCENIC (Single-cell regulatory network inference and clustering) is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

randfold computes the probability that, for a given sequence, the Minimum Free Energy (MFE) of the secondary structure is different from MFE computed with random sequences.

This package converts the output of the Sailfish and Salmon RNA-seq quantification tools so that it can be used with the Sleuth differential analysis package.