An R-shiny application to visualize bio-loggers time series at a microsecond precision as Acceleration, Temperature, Pressure, Light intensity. It is possible to link behavioral labels extracted from BORIS software <http://www.boris.unito.it> or manually written in a csv file.

This package provides a suite of methods to fit and predict case count data using a compartmental SIRS (Susceptible â Infectious â Recovered â Susceptible) model, based on an assumed specification of the effective reproduction number. The significance of this approach is that it relates epidemic progression to the average number of contacts of infected individuals, which decays as a function of the total susceptible fraction remaining in the population. The main functions are pred.curve(), which computes the epidemic curve for a set of parameters, and estimate.mle(), which finds the best fitting curve to observed data. The easiest way to pass arguments to the functions is via a config file, which contains input settings required for prediction, and the package offers two methods, navigate_to_config() which points the user to the configuration file, and re_predict() for starting the fit-predict process. The main model was published in Razvan G. Romanescu et al. <doi:10.1016/j.epidem.2023.100708>.

Package to Handle R Requests from R Service Bus Applications with JSON Payloads in a generic way. The incoming request is encoded as a string (character vector of length one) containing the JSON file passed through by the client.

This package provides an Rcmdr "plug-in" based on the TeachingDemos package, and is primarily for illustrative purposes.

This package implements the Simulating Optimal FUNctioning framework for site-scale simulations of ecosystem processes, including model calibration. It contains Fortran 90 modules for the P-model (Stocker et al. (2020) <doi:10.5194/gmd-13-1545-2020>), SPLASH (Davis et al. (2017) <doi:10.5194/gmd-10-689-2017>) and BiomeE (Weng et al. (2015) <doi:10.5194/bg-12-2655-2015>).

Processing logical operations such as AND/OR/NOT operations dynamically. It also handles nesting in the operations.

This package provides R and JavaScript functions to allow WebGL'-based 3D plotting using the three.js JavaScript library. Interactivity through roll-over highlighting and toggle buttons is also supported.

Three methods to calculate R2 for models with correlated errors, including Phylogenetic GLS, Phylogenetic Logistic Regression, Linear Mixed Models (LMMs), and Generalized Linear Mixed Models (GLMMs). See details in Ives 2018 <doi:10.1093/sysbio/syy060>.

Native R only allows PDF exports of reference manuals. The Rd2md package converts the package documentation files into markdown files and combines them into a markdown version of the package reference manual.

An extension package for sparklyr that provides an R interface to H2O Sparkling Water machine learning library (see <https://github.com/h2oai/sparkling-water> for more information).

Implementation of robust sparse PCA using the ROSPCA algorithm of Hubert et al. (2016) <DOI:10.1080/00401706.2015.1093962>.

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

R Interface to JDemetra+ 3.x (<https://github.com/jdemetra>) time series analysis software. It offers full access to options and outputs of X-13', including Reg-ARIMA modelling (automatic AutoRegressive Integrated Moving Average (ARIMA) model with outlier detection and trading days adjustment) and X-11 decomposition.

This tool can be used to build binary interval trees using real number inputs. The tree supports queries of intervals overlapping a single number or an interval (start, end). Intervals with same bounds but different names are treated as distinct intervals. Insertion of intervals is also allowed. Deletion of intervals is not implemented at this point. See Mark de Berg, Otfried Cheong, Marc van Kreveld, Mark Overmars (2008). Computational Geometry: Algorithms and Applications, for a reference.

Implementation of JQuery <https://jquery.com> and CSS styles to allow easy incorporation of various social media elements on a page. The elements include addition of share buttons or connect with us buttons or hyperlink buttons to Shiny applications or dashboards and Rmarkdown documents.Sharing capability on social media platforms including Facebook <https://www.facebook.com>, Linkedin <https://www.linkedin.com>, X/Twitter <https://x.com>, Tumblr <https://www.tumblr.com>, Pinterest <https://www.pinterest.com>, Whatsapp <https://www.whatsapp.com>, Reddit <https://www.reddit.com>, Baidu <https://www.baidu.com>, Blogger <https://www.blogger.com>, Weibo <https://www.weibo.com>, Instagram <https://www.instagram.com>, Telegram <https://www.telegram.me>, Youtube <https://www.youtube.com>.

Portfolio optimization is achieved through a combination of regularization techniques and ensemble methods that are designed to generate stable out-of-sample return predictions, particularly in the presence of strong correlations among assets. The package includes functions for data preparation, parallel processing, and portfolio analysis using methods such as Mean-Variance, James-Stein, LASSO, Ridge Regression, and Equal Weighting. It also provides visualization tools and performance metrics, such as the Sharpe ratio, volatility, and maximum drawdown, to assess the results.

Analysis of corneal data obtained from a Placido disk corneal topographer with calculation of irregularity indices. This package performs analyses of corneal data obtained from a Placido disk corneal topographer, with the calculation of the Placido irregularity indices and the posterior analysis. The package is intended to be easy to use by a practitioner, providing a simple interface and yielding easily interpretable results. A corneal topographer is an ophthalmic clinical device that obtains measurements in the cornea (the anterior part of the eye). A Placido disk corneal topographer makes use of the Placido disk [Rowsey et al. (1981)]<doi:10.1001/archopht.1981.03930011093022>, which produce a circular pattern of measurement nodes. The raw information measured by such a topographer is used by practitioners to analyze curvatures, to study optical aberrations, or to diagnose specific conditions of the eye (e.g. keratoconus, an important corneal disease). The rPACI package allows the calculation of the corneal irregularity indices described in [Castro-Luna et al. (2020)]<doi:10.1016%2Fj.clae.2019.12.006>, [Ramos-Lopez et al. (2013)]<doi:10.1097%2FOPX.0b013e3182843f2a>, and [Ramos-Lopez et al. (2011)]<doi:10.1097/opx.0b013e3182279ff8>. It provides a simple interface to read corneal topography data files as exported by a typical Placido disk topographer, to compute the irregularity indices mentioned before, and to display summary plots that are easy to interpret for a clinician.

This package provides a tool to exchange data between R and Raven sound analysis software (Cornell Lab of Ornithology). Functions work on data formats compatible with the R package warbleR'.

Time the execution of overlapping or unique Rcpp code chunks using convenient methods, seamlessly write timing results to an RcppClock object in the R global environment, and summarize and/or plot the results in R.

Relational Class Analysis (RCA) is a method for detecting heterogeneity in attitudinal data (as described in Goldberg A., 2011, Am. J. Soc, 116(5)).

Run simple R scripts as command line applications, with automatic robust and convenient support for command line arguments. This package provides Rapp', an alternative R front-end similar to Rscript', that enables this.

Pointwise generation and display of attractors (prefractals) of the random iterated function system (RIFS) for various combinations of probabilistic and geometric parameters of some fixed point sets (protofractals), described by Bukhovets A.G. (2012) <doi:10.1134/S0005117912020154>.

The analysis of different aspects of biodiversity requires specific algorithms. For example, in regionalisation analyses, the high frequency of ties and zero values in dissimilarity matrices produced by Beta-diversity turnover produces hierarchical cluster dendrograms whose topology and bootstrap supports are affected by the order of rows in the original matrix. Moreover, visualisation of biogeographical regionalisation can be facilitated by a combination of hierarchical clustering and multi-dimensional scaling. The recluster package provides robust techniques to visualise and analyse patterns of biodiversity and to improve occurrence data for cryptic taxa.

An interface to the Mangal database - a collection of ecological networks. This package includes functions to work with the Mangal RESTful API methods (<https://mangal-interactions.github.io/mangal-api/>).