All the methods in this package generate a vector of uniform order statistics using a beta distribution and use an inverse cumulative distribution function for some distribution to give a vector of random order statistic variables for some distribution. This is much more efficient than using a loop since it is directly sampling from the order statistic distribution.

This ONEST software implements the method of assessing the pathologist agreement in reading PD-L1 assays (Reisenbichler et al. (2020 <doi:10.1038/s41379-020-0544-x>)), to determine the minimum number of evaluators needed to estimate agreement involving a large number of raters. Input to the program should be binary(1/0) pathology data, where â 0â may stand for negative and â 1â for positive. Additional examples were given using the data from Rimm et al. (2017 <doi:10.1001/jamaoncol.2017.0013>).

Utilize an orthogonality constrained optimization algorithm of Wen & Yin (2013) <DOI:10.1007/s10107-012-0584-1> to solve a variety of dimension reduction problems in the semiparametric framework, such as Ma & Zhu (2012) <DOI:10.1080/01621459.2011.646925>, Ma & Zhu (2013) <DOI:10.1214/12-AOS1072>, Sun, Zhu, Wang & Zeng (2019) <DOI:10.1093/biomet/asy064> and Zhou, Zhu & Zeng (2021) <DOI:10.1093/biomet/asaa087>. The package also implements some existing dimension reduction methods such as hMave by Xia, Zhang, & Xu (2010) <DOI:10.1198/jasa.2009.tm09372> and partial SAVE by Feng, Wen & Zhu (2013) <DOI:10.1080/01621459.2012.746065>. It also serves as a general purpose optimization solver for problems with orthogonality constraints, i.e., in Stiefel manifold. Parallel computing for approximating the gradient is enabled through OpenMP'.

This package provides an R interface to OpenFHE', the open-source C++ library for fully homomorphic encryption (Al Badawi and others, 2022) <https://eprint.iacr.org/2022/915>, which allows computation directly on encrypted data without access to the secret key. Supports the Brakerski-Fan-Vercauteren (BFV, 2012) <https://eprint.iacr.org/2012/144>, Brakerski-Gentry-Vaikuntanathan (BGV, 2014) <doi:10.1145/2633600>, and Cheon-Kim-Kim-Song (CKKS, 2017) <https://eprint.iacr.org/2016/421> schemes for arithmetic on encrypted numbers, together with the Ducas-Micciancio (FHEW, 2015) <https://eprint.iacr.org/2014/816> and Chillotti-Gama-Georgieva-Izabachene (TFHE, 2020) <https://eprint.iacr.org/2018/421> schemes for evaluating arbitrary functions on encrypted bits.

This package provides a collection of functions to facilitate analysis of proteomic data from Olink, primarily NPX data that has been exported from Olink Software. The functions also work on QUANT data from Olink by log- transforming the QUANT data. The functions are focused on reading data, facilitating data wrangling and quality control analysis, performing statistical analysis and generating figures to visualize the results of the statistical analysis. The goal of this package is to help users extract biological insights from proteomic data run on the Olink platform.

Generates prediction intervals and orchard plots for meta-analytic and meta-regression models fitted with the metafor package. Orchard plots augment classic forest plots by displaying individual effect sizes together with group means and their confidence and prediction intervals, providing an enhanced visualization of meta-analytic data for ecology, evolution, and beyond. Methods are described in Nakagawa et al. (2023) <doi:10.1111/2041-210X.14152>.

Interface with the One Health VBD (vector-borne disease) Hub <https://vbdhub.org/> and related repositories (VectorByte <https://www.vectorbyte.org>, GBIF <https://www.gbif.org> and AREAdata <https://pearselab.github.io/areadata/>) directly to find, download, and subset vector-borne disease data.

This package provides an interface to the OpenAQ API <https://openaq.org/>, a platform for real-time and historical air quality data from around the world. Users can retrieve measurement data, metadata for sensors and locations for air quality research and monitoring.

An R autograding extension for Otter-Grader (<https://otter-grader.readthedocs.io>). It supports grading R scripts, R Markdown documents, and R Jupyter Notebooks.

Automatically adding pkg:: to a function, i.e. mutate() becomes dplyr::mutate(). It is up to the user to determine which packages should be used explicitly, whether to include base R packages or use the functionality on selected text, a file, or a complete directory. User friendly logging is provided in the RStudio Markers pane. Lives in the spirit of lintr and styler'. Can also be used for checking which packages are actually used in a project.

Access data and processing functionalities of openEO compliant back-ends in R.

Aims to support all features of the system credential store, including non-portable ones. Supports Keychain on macOS', and Credential Manager on Windows'. See the keyring package if you need a portable API'.

Provide principally an eponymic function that numerically computes the Le Cam's one-step estimator for an independent and identically distributed sample. One-step estimation is asymptotically efficient (see L. Le Cam (1956) <https://projecteuclid.org/euclid.bsmsp/1200501652>) and can be computed faster than the maximum likelihood estimator for large observation samples, see e.g. Brouste et al. (2021) <doi:10.32614/RJ-2021-044>.

This package provides functions for transforming and viewing 2-D and 3-D (oceanographic) data and model output.

Data sets for network analysis related to People Analytics. Contains various data sets from the book Handbook of Graphs and Networks in People Analytics by Keith McNulty (2021).

This package provides tools analyzing regression models for ordinal compositional data using Wasserstein-based distances. The package includes linear programming solvers under simplex constraints, tensor product constructions and performance metrics.

Ordinal data classification, clustering and co-clustering using model-based approach with the BOS (Binary Ordinal Search) distribution for ordinal data (Christophe Biernacki and Julien Jacques (2016) <doi:10.1007/s11222-015-9585-2>).

Estimates optimal number of biomarkers for two-group classification based on microarray data.

Creativity research involves the need to score open-ended problems. Usually done by humans, automatic scoring using AI becomes more and more accurate. This package provides a simple interface to the Open Scoring API <https://openscoring.du.edu/docs>, leading creativity scoring technology by Organiscak et al. (2023) <doi:10.1016/j.tsc.2023.101356>. With it, you can score your own data directly from an R script.

Ordnance Survey ('OS') is the national mapping agency for Great Britain and produces a large variety of mapping and geospatial products. Much of OS's data is available via the OS Data Hub <https://osdatahub.os.uk/>, a platform that hosts both free and premium data products. osdatahub provides a user-friendly way to access, query, and download these data.

Offers a streamlined programmatic interface to Ordnance Survey's British National Grid (BNG) index system, enabling efficient spatial indexing and analysis based on grid references. It supports a range of geospatial applications, including statistical aggregation, data visualisation, and interoperability across datasets. Designed for developers and analysts working with geospatial data in Great Britain, osbng simplifies integration with geospatial workflows and provides intuitive tools for exploring the structure and logic of the BNG system.

Wrapper around the Open Source Routing Machine (OSRM) API <http://project-osrm.org/>. osrmr works with API versions 4 and 5 and can handle servers that run locally as well as the OSRM webserver.

Estimates optimal classification (Poole 2000) <doi:10.1093/oxfordjournals.pan.a029814> scores from roll call votes supplied though a rollcall object from package pscl'.

This package provides functionalities and data structures to retrieve, analyze and visualize aviation data. It includes a client interface to the OpenSky API <https://opensky-network.org>. It allows retrieval of flight information, as well as aircraft state vectors.