This package provides an Interface to Open Collaboration Services OCS (<https://www.open-collaboration-services.org/>) REST API.

Latent class analysis and latent class regression models for polytomous outcome variables. Also known as latent structure analysis.

Implementation of the structural model for variances in order to detect differentially expressed genes from gene expression data.

This package provides a traceability focused tool created to simplify the data manipulation necessary to create clinical summaries.

This package provides functions to find all matches or non-matches, orphans, and duplicate or other replicated elements.

Use various regression models for the analysis of win loss endpoints adjusting for non-binary and multivariate covariates.

Miscellaneous functions used for x-engineering (feature engineering) or for supporting in other packages maintained by Shichen Xie'.

Provide simple utilities for querying bhklab PharmacoDB, modeling API outputs, and integrating to cell and compound ontologies.

This package provides tools for differential expression analysis at both gene and isoform level using RNA-seq data

This package implements the method csSAM that computes cell-specific differential expression from measured cell proportions using SAM.

This package provides various functions for classification, including k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.

Restbed is a comprehensive and consistent programming model for building applications that require seamless and secure communication over HTTP.

This package provides a terminal emulator with hyperlink support. It's based on VTE and aimed at power users.

This package contains logic for sample-level variable set scoring using randomized reduced rank reconstruction error. Frost, H. Robert (2023) "Reconstruction Set Test (RESET): a computationally efficient method for single sample gene set testing based on randomized reduced rank reconstruction error" <doi:10.1101/2023.04.03.535366>.

This package provides a toolkit for working with Biological Observation Matrix (BIOM) files. Features include reading/writing all BIOM formats, rarefaction, alpha diversity, beta diversity (including UniFrac), summarizing counts by taxonomic level, and sample subsetting. Standalone functions for reading, writing, and subsetting phylogenetic trees are also provided.

This is a library to access the current API of the web speed test service GTmetrix'. It provides a convenient wrapper to start tests, get reports, and access all kinds of meta data. For more information about using the API please visit <https://gtmetrix.com/api/docs/2.0/>.

Screens all .R', .Rmd', and .qmd files to extract the name of packages used in a project. This package detects packages called with library(foo)', require(foo)', foo::bar() and use("foo", "bar") and adds these dependencies in the DESCRIPTION file in the sections Depends, Imports, and Suggests.

Fit statistical models based on the Dawid-Skene model - Dawid and Skene (1979) <doi:10.2307/2346806> - to repeated categorical rating data. Full Bayesian inference for these models is supported through the Stan modelling language. rater also allows the user to extract and plot key parameters of these models.

Allows users to easily create references to R objects then dereference when needed or modify in place without using reference classes, environments, or active bindings as workarounds. Users can also create expression references that allow subsets of any object to be referenced or expressions containing references to multiple objects.

This package implements the regularized exponentially tilted empirical likelihood method. Details of the methods are given in Kim, MacEachern, and Peruggia (2023) <doi:10.48550/arXiv.2312.17015>. This work was supported by the U.S. National Science Foundation under Grants No. SES-1921523 and DMS-2015552.

Collect your data on digital marketing campaigns from Awin using the Windsor.ai API <https://windsor.ai/api-fields/>.

Primarily created as an easy and understanding way to do basic sequences surrounding the central dogma of molecular biology.

Method for identifying the instar of Curculionid larvae from the observed distribution of the headcapsule size of mature larvae.

Easily cache and retrieve computation results. The package works seamlessly across interactive R sessions, R scripts and Rmarkdown documents.