Offers bathymetric interpolation using Inverse Distance Weighted and Ordinary Kriging via the gstat and terra packages. Other functions focus on quantifying physical aquatic habitats (e.g., littoral, epliminion, metalimnion, hypolimnion) from interpolated digital elevation models (DEMs). Functions were designed to calculate these metrics across water levels for use in reservoirs but can be applied to any DEM and will provide values for fixed conditions. Parameters like Secchi disk depth or estimated photic zone, thermocline depth, and water level fluctuation depth are included in most functions.

This package provides functions to access data from the Strava v3 API <https://developers.strava.com/>.

Display a randomly selected quote about Richard M. Stallman based on the collection in the GNU Octave function fact() which was aggregated by Jordi Gutiérrez Hermoso based on the (now defunct) site stallmanfacts.com (which is accessible only via <http://archive.org>).

This package provides a set of tools to reconstruct ordered ontogenic trajectories from single cell RNAseq data.

Prediction of claim counts using the feature based development factors introduced in the manuscript Hiabu M., Hofman E. and Pittarello G. (2023) <doi:10.48550/arXiv.2312.14549>. Implementation of Neural Networks, Extreme Gradient Boosting, and Cox model with splines to optimise the partial log-likelihood of proportional hazard models.

An R Commander plug-in for the WorldFlora package. It was mainly developed to show work flows and scripts for first-time users.

This is a sudoku game package with a shiny application for playing .

The visualization tool offers a nuanced understanding of regression dynamics, going beyond traditional per-unit interpretation of continuous variables versus categorical ones. It highlights the impact of unit changes as well as larger shifts like interquartile changes, acknowledging the distribution of empirical data. Furthermore, it generates visualizations depicting alterations in Odds Ratios for predictors across minimum, first quartile, median, third quartile, and maximum values, aiding in comprehending predictor-outcome interplay within empirical data distributions, particularly in logistic regression frameworks.

R package for creating, manipulating and reading RO-Crates. Latest supported version of the specification: <https://w3id.org/ro/crate/1.2/>.

Utilities for accessing RePEc (Research Papers in Economics) through a RESTful API. You can request a code and get detailed information at the following page: <https://ideas.repec.org/api.html>.

Calculates evaluation metrics for implicit-feedback recommender systems that are based on low-rank matrix factorization models, given the fitted model matrices and data, thus allowing to compare models from a variety of libraries. Metrics include P@K (precision-at-k, for top-K recommendations), R@K (recall at k), AP@K (average precision at k), NDCG@K (normalized discounted cumulative gain at k), Hit@K (from which the Hit Rate is calculated), RR@K (reciprocal rank at k, from which the MRR or mean reciprocal rank is calculated), ROC-AUC (area under the receiver-operating characteristic curve), and PR-AUC (area under the precision-recall curve). These are calculated on a per-user basis according to the ranking of items induced by the model, using efficient multi-threaded routines. Also provides functions for creating train-test splits for model fitting and evaluation.

The rmoo package is a framework for multi- and many-objective optimization, which allows researchers and users versatility in parameter configuration, as well as tools for analysis, replication and visualization of results. The rmoo package was built as a fork of the GA package by Luca Scrucca(2017) <DOI:10.32614/RJ-2017-008> and implementing the Non-Dominated Sorting Genetic Algorithms proposed by K. Deb's.

This package provides a programmatic interface to FishBase', re-written based on an accompanying RESTful API. Access tables describing over 30,000 species of fish, their biology, ecology, morphology, and more. This package also supports experimental access to SeaLifeBase data, which contains nearly 200,000 species records for all types of aquatic life not covered by FishBase.'.

This package provides functions allowing the user to recursively extract frequent patterns and confident rules according to indicators of minimal support and minimal confidence. These functions are described in "Recursive Association Rule Mining" Abdelkader Mokkadem, Mariane Pelletier, Louis Raimbault (2020) <arXiv:2011.14195>.

This package provides a data manager meant to avoid manual storage/retrieval of data to/from the file system. It builds one (or more) centralized repository where R objects are stored with rich annotations, including corresponding code chunks, and easily searched and retrieved. See Napolitano (2017) <doi:10.1037/a0028240> for further information.

Placental epigenetic clock to estimate aging based on gestational age using DNA methylation levels, so called placental epigenetic clock (PlEC). We developed a PlEC for the 2024 Placental Clock DREAM Challenge (<https://www.synapse.org/Synapse:syn59520082/wiki/628063>). Our PlEC achieved the top performance based on an independent test set. PlEC can be used to identify accelerated/decelerated aging of placenta for understanding placental dysfunction-related conditions, e.g., great obstetrical syndromes including preeclampsia, fetal growth restriction, preterm labor, preterm premature rupture of the membranes, late spontaneous abortion, and placental abruption. Detailed methodologies and examples are documented in our vignette, available at <https://herdiantrisufriyana.github.io/rplec/doc/placental_aging_analysis.html>.

This package contains tools for working with and analyzing hospital readmissions data. The package provides utilities for components of the Hospital Readmissions Reduction Program (HRRP), including program timeline functions, Hospital-Specific Report (HSR) helpers, and general importing tools for the Provider Data Catalog (PDC).

This is an R wrapper from the AWS Command Line Interface that provides methods to manage the user configuration on Amazon Web Service. You can create as many profiles as you want, manage them, and delete them. The profiles created with this tool work with all AWS products such as S3, Glacier, and EC2. It also provides a function to automatically install AWS CLI, but you can download it and install it manually if you prefer.

This package provides functions for the determination of optimally robust influence curves and estimators in case of normal location and/or scale (see Chapter 8 in Kohl (2005) <https://epub.uni-bayreuth.de/839/2/DissMKohl.pdf>).

This package implements the hierarchical Bayesian analysis of populations structure (hierBAPS) algorithm of Cheng et al. (2013) <doi:10.1093/molbev/mst028> for clustering DNA sequences from multiple sequence alignments in FASTA format. The implementation includes improved defaults and plotting capabilities and unlike the original MATLAB version removes singleton SNPs by default.

The A() function calculates the A statistic, a nonparametric measure of effect size for two independent groups thatâ s also known as the probability of superiority (Ruscio, 2008), along with its standard error and a confidence interval constructed using bootstrap methods (Ruscio & Mullen, 2012). Optional arguments can be specified to calculate variants of the A statistic developed for other research designs (e.g., related samples, more than two independent groups or related samples; Ruscio & Gera, 2013). <DOI: 10.1037/1082-989X.13.1.19>. <DOI: 10.1080/00273171.2012.658329>. <DOI: 10.1080/00273171.2012.738184>.

This package provides utilities for the design and analysis of replication studies. Features both traditional methods based on statistical significance and more recent methods such as the sceptical p-value; Held L. (2020) <doi:10.1111/rssa.12493>, Held et al. (2022) <doi:10.1214/21-AOAS1502>, Micheloud et al. (2023) <doi:10.1111/stan.12312>. Also provides related methods including the harmonic mean chi-squared test; Held, L. (2020) <doi:10.1111/rssc.12410>, and intrinsic credibility; Held, L. (2019) <doi:10.1098/rsos.181534>. Contains datasets from five large-scale replication projects.

Datasets and utility functions to support the book "R for Plant Disease Epidemiology" (R4PDE). It includes functions for quantifying disease, assessing spatial patterns, and modeling plant disease epidemics based on weather predictors. These tools are intended for teaching and research in plant disease epidemiology. Several functions are based on classical and contemporary methods, including those discussed in Laurence V. Madden, Gareth Hughes, and Frank van den Bosch (2007) <doi:10.1094/9780890545058>.

Downloads and parses SDF (Structural Description Format) and PDB (Protein Database) files for 3D rendering.