This package infers relative kinase activity from phosphoproteomics data using the method described by Casado et al. (2013) <doi:10.1126/scisignal.2003573>.

Calculation of rectifying LTPD and AOQL plans for sampling inspection by variables which minimize mean inspection cost per lot of process average quality.

Miscellaneous R functions (for graphics, data import, data transformation, and general utilities) and templates (for exploratory analysis, Bayesian modeling, and crafting scientific manuscripts).

This package provides the mean to parse and render markdown text with grid along with facilities to define the styling of the text.

Investigate (analytically or visually) the inputs and outputs of probabilistic analyses of health economic models using standard health economic visualisation and metamodelling methods.

Extends the popular lavaan package by adding penalized estimation capabilities. It supports penalty on individual parameters as well as the difference between parameters.

This package provides a collection of functions that creates graphs with error bars for data collected from one-way or higher factorial designs.

This package provides a network module-based generalized linear model for differential expression analysis with the count-based sequence data from RNA-Seq.

Conduct asymptotic and empirical power and sample size calculations for Single-Nucleotide Polymorphism (SNP) association studies with right censored time to event outcomes.

Parse XML documents from the Open Access subset of Europe PubMed Central <https://europepmc.org> including section paragraphs, tables, captions and references.

Provide a collection of miscellaneous R functions related to the Vasicek distribution with the intent to make the lives of risk modelers easier.

Extract features and classify documents with noisy labels given by document-meta data or keyword matching Watanabe & Zhou (2020) <doi:10.1177/0894439320907027>.

This package provides tools to find the k nearest neighbours for every point in a given dataset in O(N log N) time using Arya and Mount's ANN library. There is support for approximate as well as exact searches, fixed radius searches and bd as well as kd trees. The distance is computed using the L1 (Manhattan, taxicab) metric.

Flog reports the most tortured code in an easy to read pain report. The higher the score, the more pain the code is in.

This package provides an implementation of the Harmony algorithm for single cell integration. This package includes a standalone Harmony function and interfaces to external frameworks.

This package provides simple mechanisms for defining and interpreting package options. It provides helpers for interpreting environment variables, global options, defining default values and more.

Collections of accessor functions and patterns to access the elements in compound type specifier, e.g. dimensions in (array element-type dimensions)

Bake is a task execution tool, inspired by Rake, but codifying many of the use cases which are typically implemented in an ad-hoc manner.

This package contains a set of processing and plotting methods for performing copy-number variation (CNV) analysis using Illumina 450k or EPIC methylation arrays.

An unofficial companion to the textbook "Applied Regression Analysis" by N.R. Draper and H. Smith (3rd Ed., 1998) including all the accompanying datasets.

This package provides a simple client for the Amazon Web Services ('AWS') Identity and Access Management ('IAM') API <https://aws.amazon.com/iam/>.

Implementations of recent complex-valued wavelet shrinkage procedures for smoothing irregularly sampled signals, see Hamilton et al (2018) <doi:10.1080/00401706.2017.1281846>.

Perform a test of a simple null hypothesis about a directly standardized rate and obtain the matching confidence interval using a choice of methods.

Deconvolving cell types from high-throughput gene profiling data. For more information on dtangle see Hunt et al. (2019) <doi:10.1093/bioinformatics/bty926>.