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r-panelview
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Visualizes panel data. It has three main functionalities: (1) it plots the treatment status and missing values in a panel dataset; (2) it visualizes the temporal dynamics of a main variable of interest; (3) it depicts the bivariate relationships between a treatment variable and an outcome variable either by unit or in aggregate. For details, see <doi:10.18637/jss.v107.i07>.
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2025-03-25 |
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r-pandoc
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Provides a set of tools to install, manage and run several 'Pandoc' versions.
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2025-03-25 |
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r-panelvar
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We extend two general methods of moment estimators to panel vector autoregression models (PVAR) with p lags of endogenous variables, predetermined and strictly exogenous variables. This general PVAR model contains the first difference GMM estimator by Holtz-Eakin et al. (1988) <doi:10.2307/1913103>, Arellano and Bond (1991) <doi:10.2307/2297968> and the system GMM estimator by Blundell and Bond (1998) <doi:10.1016/S0304-4076(98)00009-8>. We also provide specification tests (Hansen overidentification test, lag selection criterion and stability test of the PVAR polynomial) and classical structural analysis for PVAR models such as orthogonal and generalized impulse response functions, bootstrapped confidence intervals for impulse response analysis and forecast error variance decompositions.
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2025-03-25 |
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r-panelr
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Provides an object type and associated tools for storing and wrangling panel data. Implements several methods for creating regression models that take advantage of the unique aspects of panel data. Among other capabilities, automates the "within-between" (also known as "between-within" and "hybrid") panel regression specification that combines the desirable aspects of both fixed effects and random effects econometric models and fits them as multilevel models (Allison, 2009 <doi:10.4135/9781412993869.d33>; Bell & Jones, 2015 <doi:10.1017/psrm.2014.7>). These models can also be estimated via generalized estimating equations (GEE; McNeish, 2019 <doi:10.1080/00273171.2019.1602504>) and Bayesian estimation is (optionally) supported via 'Stan'. Supports estimation of asymmetric effects models via first differences (Allison, 2019 <doi:10.1177/2378023119826441>) as well as a generalized linear model extension thereof using GEE.
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2025-03-25 |
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r-pals
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public |
A comprehensive collection of color palettes, colormaps, and tools to evaluate them.
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2025-03-25 |
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r-palmerpenguins
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public |
Size measurements, clutch observations, and blood isotope ratios for adult foraging Adélie, Chinstrap, and Gentoo penguins observed on islands in the Palmer Archipelago near Palmer Station, Antarctica. Data were collected and made available by Dr. Kristen Gorman and the Palmer Station Long Term Ecological Research (LTER) Program.
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2025-03-25 |
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r-paletteer
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public |
The choices of color palettes in R can be quite overwhelming with palettes spread over many packages with many different API's. This packages aims to collect all color palettes across the R ecosystem under the same package with a streamlined API.
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2025-03-25 |
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r-paleotree
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Provides tools for transforming, a posteriori time-scaling, and modifying phylogenies containing extinct (i.e. fossil) lineages. In particular, most users are interested in the functions timePaleoPhy, bin_timePaleoPhy, cal3TimePaleoPhy and bin_cal3TimePaleoPhy, which date cladograms of fossil taxa using stratigraphic data. This package also contains a large number of likelihood functions for estimating sampling and diversification rates from different types of data available from the fossil record (e.g. range data, occurrence data, etc). paleotree users can also simulate diversification and sampling in the fossil record using the function simFossilRecord, which is a detailed simulator for branching birth-death-sampling processes composed of discrete taxonomic units arranged in ancestor-descendant relationships. Users can use simFossilRecord to simulate diversification in incompletely sampled fossil records, under various models of morphological differentiation (i.e. the various patterns by which morphotaxa originate from one another), and with time-dependent, longevity-dependent and/or diversity-dependent rates of diversification, extinction and sampling. Additional functions allow users to translate simulated ancestor-descendant data from simFossilRecord into standard time-scaled phylogenies or unscaled cladograms that reflect the relationships among taxon units.
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2025-03-25 |
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r-palmr
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'Google's 'PaLM' <https://developers.generativeai.google/> as a coding and writing assistant designed for 'R' and 'RStudio.' With a range of functions, including natural language processing and coding optimization, to assist R developers in simplifying tedious coding tasks and content searching.
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2025-03-25 |
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r-pak
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The goal of 'pak' is to make package installation faster and more reliable. In particular, it performs all HTTP operations in parallel, so metadata resolution and package downloads are fast. Metadata and package files are cached on the local disk as well. 'pak' has a dependency solver, so it finds version conflicts before performing the installation. This version of 'pak' supports CRAN, 'Bioconductor' and 'GitHub' packages as well.
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2025-03-25 |
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r-paireddata
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Many datasets and a set of graphics (based on ggplot2), statistics, effect sizes and hypothesis tests are provided for analysing paired data with S4 class.
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2025-03-25 |
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r-pagedown
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Use the paged media properties in CSS and the JavaScript library 'paged.js' to split the content of an HTML document into discrete pages. Each page can have its page size, page numbers, margin boxes, and running headers, etc. Applications of this package include books, letters, reports, papers, business cards, resumes, and posters.
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2025-03-25 |
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r-ows4r
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Provides an Interface to Web-Services defined as standards by the Open Geospatial Consortium (OGC), including Web Feature Service (WFS) for vector data, Web Coverage Service (WCS), Catalogue Service (CSW) for ISO/OGC metadata, Web Processing Service (WPS) for data processes, and associated standards such as the common web-service specification (OWS) and OGC Filter Encoding. Partial support is provided for the Web Map Service (WMS). The purpose is to add support for additional OGC service standards such as Web Coverage Processing Service (WCPS), the Sensor Observation Service (SOS), or even new standard services emerging such OGC API or SensorThings.
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2025-03-25 |
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r-overlapping
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Functions for estimating the overlapping area of two or more kernel density estimations from empirical data.
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2025-03-25 |
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r-osrm
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An interface between R and the 'OSRM' API. 'OSRM' is a routing service based on 'OpenStreetMap' data. See <http://project-osrm.org/> for more information. This package enables the computation of routes, trips, isochrones and travel distances matrices (travel time and kilometric distance).
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2025-03-25 |
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r-oro.nifti
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public |
Functions for the input/output and visualization of medical imaging data that follow either the 'ANALYZE', 'NIfTI' or 'AFNI' formats. This package is part of the Rigorous Analytics bundle.
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2025-03-25 |
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r-origami
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A general framework for the application of cross-validation schemes to particular functions. By allowing arbitrary lists of results, origami accommodates a range of cross-validation applications. This implementation was first described by Coyle and Hejazi (2018) <doi:10.21105/joss.00512>.
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2025-03-25 |
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r-optweight
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Use optimization to estimate weights that balance covariates for binary, multinomial, and continuous treatments in the spirit of Zubizarreta (2015) <doi:10.1080/01621459.2015.1023805>. The degree of balance can be specified for each covariate. In addition, sampling weights can be estimated that allow a sample to generalize to a population specified with given target moments of covariates.
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2025-03-25 |
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r-openstreetmap
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Accesses high resolution raster maps using the OpenStreetMap protocol. Dozens of road, satellite, and topographic map servers are directly supported, including Apple, Mapnik, Bing, and stamen. Additionally raster maps may be constructed using custom tile servers. Maps can be plotted using either base graphics, or ggplot2. This package is not affiliated with the OpenStreetMap.org mapping project.
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2025-03-25 |
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r-opennlp
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An interface to the Apache OpenNLP tools (version 1.5.3). The Apache OpenNLP library is a machine learning based toolkit for the processing of natural language text written in Java. It supports the most common NLP tasks, such as tokenization, sentence segmentation, part-of-speech tagging, named entity extraction, chunking, parsing, and coreference resolution. See <https://opennlp.apache.org/> for more information.
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2025-03-25 |
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r-opencpu
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A system for embedded scientific computing and reproducible research with R. The OpenCPU server exposes a simple but powerful HTTP api for RPC and data interchange with R. This provides a reliable and scalable foundation for statistical services or building R web applications. The OpenCPU server runs either as a single-user development server within the interactive R session, or as a multi-user Linux stack based on Apache2. The entire system is fully open source and permissively licensed. The OpenCPU website has detailed documentation and example apps.
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2025-03-25 |
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r-openalexr
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A set of tools to extract bibliographic content from 'OpenAlex' database using API <https://docs.openalex.org>.
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2025-03-25 |
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r-openai
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An R wrapper of OpenAI API endpoints (see <https://platform.openai.com/docs/introduction> for details). This package covers Models, Completions, Chat, Edits, Images, Embeddings, Audio, Files, Fine-tunes, Moderations, and legacy Engines endpoints.
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2025-03-25 |
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r-opdisdownsampling
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An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data.
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2025-03-25 |
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r-ooplah
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public |
Helper functions for coding object-oriented programming with a focus on R6. Includes functions for assertions and testing, looping, and re-usable design patterns including Abstract and Decorator classes.
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2025-03-25 |
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r-onewaytests
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Performs one-way tests in independent groups designs including homoscedastic and heteroscedastic tests. These are one-way analysis of variance (ANOVA), Welch's heteroscedastic F test, Welch's heteroscedastic F test with trimmed means and Winsorized variances, Brown-Forsythe test, Alexander-Govern test, James second order test, Kruskal-Wallis test, Scott-Smith test, Box F test, Johansen F test, Generalized tests equivalent to Parametric Bootstrap and Fiducial tests, Alvandi's F test, Alvandi's generalized p-value, approximate F test, B square test, Cochran test, Weerahandi's generalized F test, modified Brown-Forsythe test, adjusted Welch's heteroscedastic F test, Welch-Aspin test, Permutation F test. The package performs pairwise comparisons and graphical approaches. Also, the package includes Student's t test, Welch's t test and Mann-Whitney U test for two samples. Moreover, it assesses variance homogeneity and normality of data in each group via tests and plots (Dag et al., 2018, <https://journal.r-project.org/archive/2018/RJ-2018-022/RJ-2018-022.pdf>).
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2025-03-25 |
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r-ompr
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Model mixed integer linear programs in an algebraic way directly in R. The model is solver-independent and thus offers the possibility to solve a model with different solvers. It currently only supports linear constraints and objective functions. See the 'ompr' website <https://dirkschumacher.github.io/ompr/> for more information, documentation and examples.
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2025-03-25 |
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r-ompr.roi
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A solver for 'ompr' based on the R Optimization Infrastructure ('ROI'). The package makes all solvers in 'ROI' available to solve 'ompr' models. Please see the 'ompr' website <https://dirkschumacher.github.io/ompr/> and package docs for more information and examples on how to use it.
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2025-03-25 |
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r-officedown
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Allows production of 'Microsoft' corporate documents from 'R Markdown' by reusing formatting defined in 'Microsoft Word' documents. You can reuse table styles, list styles but also add column sections, landscape oriented pages. Table and image captions as well as cross-references are transformed into 'Microsoft Word' fields, allowing documents edition and merging without issue with references; the syntax conforms to the 'bookdown' cross-reference definition. Objects generated by the 'officer' package are also supported in the 'knitr' chunks. 'Microsoft PowerPoint' presentations also benefit from this as well as the ability to produce editable vector graphics in 'PowerPoint' and also to define placeholder where content is to be added.
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2025-03-25 |
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r-olinkanalyze
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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.
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2025-03-25 |
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r-odin
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Generate systems of ordinary differential equations (ODE) and integrate them, using a domain specific language (DSL). The DSL uses R's syntax, but compiles to C in order to efficiently solve the system. A solver is not provided, but instead interfaces to the packages 'deSolve' and 'dde' are generated. With these, while solving the differential equations, no allocations are done and the calculations remain entirely in compiled code. Alternatively, a model can be transpiled to R for use in contexts where a C compiler is not present. After compilation, models can be inspected to return information about parameters and outputs, or intermediate values after calculations. 'odin' is not targeted at any particular domain and is suitable for any system that can be expressed primarily as mathematical expressions. Additional support is provided for working with delays (delay differential equations, DDE), using interpolated functions during interpolation, and for integrating quantities that represent arrays.
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2025-03-25 |
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r-oecd
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Search and extract data from the Organization for Economic Cooperation and Development (OECD).
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2025-03-25 |
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r-oddsratio
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Simplified odds ratio calculation of GAM(M)s & GLM(M)s. Provides structured output (data frame) of all predictors and their corresponding odds ratios and confident intervals for further analyses. It helps to avoid false references of predictors and increments by specifying these parameters in a list instead of using 'exp(coef(model))' (standard approach of odds ratio calculation for GLMs) which just returns a plain numeric output. For GAM(M)s, odds ratio calculation is highly simplified with this package since it takes care of the multiple 'predict()' calls of the chosen predictor while holding other predictors constant. Also, this package allows odds ratio calculation of percentage steps across the whole predictor distribution range for GAM(M)s. In both cases, confident intervals are returned additionally. Calculated odds ratio of GAM(M)s can be inserted into the smooth function plot.
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2025-03-25 |
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r-od
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The aim of 'od' is to provide tools and example datasets for working with origin-destination ('OD') datasets of the type used to describe aggregate urban mobility patterns (Carey et al. 1981) <doi:10.1287/trsc.15.1.32>. The package builds on functions for working with 'OD' data in the package 'stplanr', (Lovelace and Ellison 2018) <doi:10.32614/RJ-2018-053> with a focus on computational efficiency and support for the 'sf' class system (Pebesma 2018) <doi:10.32614/RJ-2018-009>. With few dependencies and a simple class system based on data frames, the package is intended to facilitate efficient analysis of 'OD' datasets and to provide a place for developing new functions. The package enables the creation and analysis of geographic entities representing large scale mobility patterns, from daily travel between zones in cities to migration between countries.
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2025-03-25 |
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r-oai
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A general purpose client to work with any 'OAI-PMH' (Open Archives Initiative Protocol for 'Metadata' Harvesting) service. The 'OAI-PMH' protocol is described at <http://www.openarchives.org/OAI/openarchivesprotocol.html>. Functions are provided to work with the 'OAI-PMH' verbs: 'GetRecord', 'Identify', 'ListIdentifiers', 'ListMetadataFormats', 'ListRecords', and 'ListSets'.
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2025-03-25 |
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r-nsyllable
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Counts syllables in character vectors for English words. Imputes syllables as the number of vowel sequences for words not found.
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2025-03-25 |
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r-nullabor
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Tools for visual inference. Generate null data sets and null plots using permutation and simulation. Calculate distance metrics for a lineup, and examine the distributions of metrics.
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2025-03-25 |
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r-noctua
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Designed to be compatible with the 'R' package 'DBI' (Database Interface) when connecting to Amazon Web Service ('AWS') Athena <https://aws.amazon.com/athena/>. To do this the 'R' 'AWS' Software Development Kit ('SDK') 'paws' <https://github.com/paws-r/paws> is used as a driver.
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2025-03-25 |
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r-nominatimlite
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Lite interface for getting data from 'OSM' service 'Nominatim' <https://nominatim.org/release-docs/latest/>. Extract coordinates from addresses, find places near a set of coordinates, search for amenities and return spatial objects on 'sf' format.
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2025-03-25 |
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r-nmdata
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Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem. Attention is paid to ensure consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
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2025-03-25 |
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r-nnfor
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Automatic time series modelling with neural networks. Allows fully automatic, semi-manual or fully manual specification of networks. For details of the specification methodology see: (i) Crone and Kourentzes (2010) <doi:10.1016/j.neucom.2010.01.017>; and (ii) Kourentzes et al. (2014) <doi:10.1016/j.eswa.2013.12.011>.
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2025-03-25 |
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r-nlraa
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Additional nonlinear regression functions using self-start (SS) algorithms. One of the functions is the Beta growth function proposed by Yin et al. (2003) <doi:10.1093/aob/mcg029>. There are several other functions with breakpoints (e.g. linear-plateau, plateau-linear, exponential-plateau, plateau-exponential, quadratic-plateau, plateau-quadratic and bilinear), a non-rectangular hyperbola and a bell-shaped curve. Twenty eight (28) new self-start (SS) functions in total. This package also supports the publication 'Nonlinear regression Models and applications in agricultural research' by Archontoulis and Miguez (2015) <doi:10.2134/agronj2012.0506>, a book chapter with similar material <doi:10.2134/appliedstatistics.2016.0003.c15> and a publication by Oddi et. al. (2019) in Ecology and Evolution <doi:10.1002/ece3.5543>. The function 'nlsLMList' uses 'nlsLM' for fitting, but it is otherwise almost identical to 'nlme::nlsList'.In addition, this release of the package provides functions for conducting simulations for 'nlme' and 'gnls' objects as well as bootstrapping. These functions are intended to work with the modeling framework of the 'nlme' package. It also provides four vignettes with extended examples.
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2025-03-25 |
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r-nlist
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Create and manipulate numeric list ('nlist') objects. An 'nlist' is an S3 list of uniquely named numeric objects. An numeric object is an integer or double vector, matrix or array. An 'nlists' object is a S3 class list of 'nlist' objects with the same names, dimensionalities and typeofs. Numeric list objects are of interest because they are the raw data inputs for analytic engines such as 'JAGS', 'STAN' and 'TMB'. Numeric lists objects, which are useful for storing multiple realizations of of simulated data sets, can be converted to coda::mcmc and coda::mcmc.list objects.
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2025-03-25 |
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r-nlmixr2data
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Datasets for 'nlmixr2' and 'rxode2'. 'nlmixr2' is used for fitting and comparing nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
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2025-03-25 |
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r-nhanesa
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Utility to retrieve data from the National Health and Nutrition Examination Survey (NHANES) website <https://www.cdc.gov/nchs/nhanes/index.htm>.
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2025-03-25 |
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r-nflseedr
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A set of functions to simulate National Football League seasons including the sophisticated tie-breaking procedures.
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2025-03-25 |
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r-ngramrr
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A simple n-gram (contiguous sequences of n items from a given sequence of text) tokenizer to be used with the 'tm' package with no 'rJava'/'RWeka' dependency.
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2025-03-25 |
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r-nflreadr
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A minimal package for downloading data from 'GitHub' repositories of the 'nflverse' project.
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2025-03-25 |
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r-nflfastr
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A set of functions to access National Football League play-by-play data from <https://www.nfl.com/>.
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2025-03-25 |
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r-nfl4th
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A set of functions to estimate outcomes of fourth down plays in the National Football League and obtain fourth down plays from <https://www.nfl.com/> and <https://www.espn.com/>.
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2025-03-25 |
