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r-flamingos
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public |
Provides a variety of original and flexible user-friendly statistical latent variable models for the simultaneous clustering and segmentation of heterogeneous functional data (i.e time series, or more generally longitudinal data, fitted by unsupervised algorithms, including EM algorithms. Functional Latent Data Models for Clustering heterogeneous curves ('FLaMingos') are originally introduced and written in 'Matlab' by Faicel Chamroukhi <https://github.com/fchamroukhi?utf8=?&tab=repositories&q=mix&type=public&language=matlab>. The references are mainly the following ones. Chamroukhi F. (2010) <https://chamroukhi.com/FChamroukhi-PhD.pdf>. Chamroukhi F., Same A., Govaert, G. and Aknin P. (2010) <doi:10.1016/j.neucom.2009.12.023>. Chamroukhi F., Same A., Aknin P. and Govaert G. (2011). <doi:10.1109/IJCNN.2011.6033590>. Same A., Chamroukhi F., Govaert G. and Aknin, P. (2011) <doi:10.1007/s11634-011-0096-5>. Chamroukhi F., and Glotin H. (2012) <doi:10.1109/IJCNN.2012.6252818>. Chamroukhi F., Glotin H. and Same A. (2013) <doi:10.1016/j.neucom.2012.10.030>. Chamroukhi F. (2015) <https://chamroukhi.com/FChamroukhi-HDR.pdf>. Chamroukhi F. and Nguyen H-D. (2019) <doi:10.1002/widm.1298>.
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2024-01-17 |
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r-hmisc
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None |
Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, simulation, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, recoding variables, caching, simplified parallel computing, encrypting and decrypting data using a safe workflow, general moving window statistical estimation, and assistance in interpreting principal component analysis.
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2024-01-17 |
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r-inext
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public |
Provides simple functions to compute and plot two types (sample-size- and coverage-based) rarefaction and extrapolation curves for species diversity (Hill numbers) based on individual-based abundance data or sampling-unit- based incidence data; see Chao and others (2014, Ecological Monographs) for pertinent theory and methodologies, and Hsieh, Ma and Chao (2016, Methods in Ecology and Evolution) for an introduction of the R package.
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2024-01-17 |
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r-hunspell
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public |
Low level spell checker and morphological analyzer based on the famous 'hunspell' library <https://hunspell.github.io>. The package can analyze or check individual words as well as parse text, latex, html or xml documents. For a more user-friendly interface use the 'spelling' package which builds on this package to automate checking of files, documentation and vignettes in all common formats.
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2024-01-17 |
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r-fdamixed
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public |
Likelihood based analysis of 1-dimension functional data in a mixed-effects model framework. Matrix computation are approximated by semi-explicit operator equivalents with linear computational complexity. Markussen (2013) <doi:10.3150/11-BEJ389>.
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2024-01-17 |
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r-collapse
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public |
A C/C++ based package for advanced data transformation and statistical computing in R that is extremely fast, class-agnostic, robust and programmer friendly. Core functionality includes a rich set of S3 generic grouped and weighted statistical functions for vectors, matrices and data frames, which provide efficient low-level vectorizations, OpenMP multithreading, and skip missing values by default. These are integrated with fast grouping and ordering algorithms (also callable from C), and efficient data manipulation functions. The package also provides a flexible and rigorous approach to time series and panel data in R. It further includes fast functions for common statistical procedures, detailed (grouped, weighted) summary statistics, powerful tools to work with nested data, fast data object conversions, functions for memory efficient R programming, and helpers to effectively deal with variable labels, attributes, and missing data. It is well integrated with base R classes, 'dplyr'/'tibble', 'data.table', 'sf', 'plm' (panel-series and data frames), and 'xts'/'zoo'.
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2024-01-17 |
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r-fcros
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public |
A fold change rank based method is presented to search for genes with changing expression and to detect recurrent chromosomal copy number aberrations. This method may be useful for high-throughput biological data (micro-array, sequencing, ...). Probabilities are associated with genes or probes in the data set and there is no problem of multiple tests when using this method. For array-based comparative genomic hybridization data, segmentation results are obtained by merging the significant probes detected.
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2024-01-17 |
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r-curl
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None |
The curl() and curl_download() functions provide highly configurable drop-in replacements for base url() and download.file() with better performance, support for encryption (https, ftps), gzip compression, authentication, and other 'libcurl' goodies. The core of the package implements a framework for performing fully customized requests where data can be processed either in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly web client see the 'httr' package which builds on this package with http specific tools and logic.
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2024-01-17 |
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r-epiilmct
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public |
Provides tools for simulating from continuous-time individual level models of disease transmission, and carrying out infectious disease data analyses with the same models. The epidemic models considered are distance-based and/or contact network-based models within Susceptible-Infectious-Removed (SIR) or Susceptible-Infectious-Notified-Removed (SINR) compartmental frameworks. <doi:10.18637/jss.v098.i10>.
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2024-01-17 |
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r-ztable
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public |
Makes zebra-striped tables (tables with alternating row colors) in LaTeX and HTML formats easily from a data.frame, matrix, lm, aov, anova, glm, coxph, nls, fitdistr, mytable and cbind.mytable objects.
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2024-01-16 |
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r-zyp
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public |
An efficient implementation of the slope method described by Sen (1968) <doi:10.1080/01621459.1968.10480934> plus implementation of prewhitening approaches to determining trends in climate data described by Zhang, Vincent, Hogg, and Niitsoo (2000) <doi:10.1080/07055900.2000.9649654> and Yue, Pilon, Phinney, and Cavadias (2002) <doi:10.1002/hyp.1095>.
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2024-01-16 |
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r-zipcoder
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public |
Make working with ZIP codes in R painless with an integrated dataset of U.S. ZIP codes and functions for working with them. Search ZIP codes by multiple geographies, including state, county, city & across time zones. Also included are functions for relating ZIP codes to Census data, geocoding & distance calculations.
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2024-01-16 |
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r-zcompositions
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public |
Principled methods for the imputation of zeros, left-censored and missing data in compositional data sets (Palarea-Albaladejo and Martin-Fernandez (2015) <doi:10.1016/j.chemolab.2015.02.019>).
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2024-01-16 |
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r-ztree
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public |
Read '.xls' and '.sbj' files which are written by the Microsoft Windows program 'z-Tree'. The latter is a software for developing and carrying out economic experiments (see <http://www.ztree.uzh.ch/> for more information).
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2024-01-16 |
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r-zseq
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public |
Generates well-known integer sequences. 'gmp' package is adopted for computing with arbitrarily large numbers. Every function has hyperlink to its corresponding item in OEIS (The On-Line Encyclopedia of Integer Sequences) in the function help page. For interested readers, see Sloane and Plouffe (1995, ISBN:978-0125586306).
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2024-01-16 |
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r-zoom
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public |
You can call zm(), when displaying any active plot to enter an interactive session to zoom/navigate any plot. The development version, as well as binary releases can be found at <https://github.com/cbarbu/R-package-zoom>.
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2024-01-16 |
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r-zoeppritz
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public |
Calculate and plot scattering matrix coefficients for plane waves at interface.
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2024-01-16 |
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r-zipfr
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public |
Statistical models and utilities for the analysis of word frequency distributions. The utilities include functions for loading, manipulating and visualizing word frequency data and vocabulary growth curves. The package also implements several statistical models for the distribution of word frequencies in a population. (The name of this package derives from the most famous word frequency distribution, Zipf's law.)
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2024-01-16 |
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r-zipr
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public |
Implements Python-style zip for R. Is a more flexible version of cbind.
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2024-01-16 |
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r-zim
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public |
Analyze count time series with excess zeros. Two types of statistical models are supported: Markov regression by Yang et al. (2013) <doi:10.1016/j.stamet.2013.02.001> and state-space models by Yang et al. (2015) <doi:10.1177/1471082X14535530>. They are also known as observation-driven and parameter-driven models respectively in the time series literature. The functions used for Markov regression or observation-driven models can also be used to fit ordinary regression models with independent data under the zero-inflated Poisson (ZIP) or zero-inflated negative binomial (ZINB) assumption. Besides, the package contains some miscellaneous functions to compute density, distribution, quantile, and generate random numbers from ZIP and ZINB distributions.
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2024-01-16 |
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r-zillowr
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public |
Zillow, an online real estate company, provides real estate and mortgage data for the United States through a REST API. The ZillowR package provides an R function for each API service, making it easy to make API calls and process the response into convenient, R-friendly data structures. See <https://www.zillow.com/howto/api/APIOverview.htm> for the Zillow API Documentation. NOTE: Zillow deprecated their API on 2021-09-30, and this package is now deprecated as a result.
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2024-01-16 |
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r-zendeskr
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public |
This package provides an R wrapper for the Zendesk API
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2024-01-16 |
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r-zeallot
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public |
Provides a %<-% operator to perform multiple, unpacking, and destructuring assignment in R. The operator unpacks the right-hand side of an assignment into multiple values and assigns these values to variables on the left-hand side of the assignment.
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2024-01-16 |
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r-yum
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public |
Provides a number of functions to facilitate extracting information in 'YAML' fragments from one or multiple files, optionally structuring the information in a 'data.tree'. 'YAML' (recursive acronym for "YAML ain't Markup Language") is a convention for specifying structured data in a format that is both machine- and human-readable. 'YAML' therefore lends itself well for embedding (meta)data in plain text files, such as Markdown files. This principle is implemented in 'yum' with minimal dependencies (i.e. only the 'yaml' packages, and the 'data.tree' package can be used to enable additional functionality).
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2024-01-16 |
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r-yulab.utils
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public |
Miscellaneous functions commonly used by 'YuLab-SMU'.
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2024-01-16 |
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r-yhat
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public |
The purpose of this package is to provide methods to interpret multiple linear regression and canonical correlation results including beta weights,structure coefficients, validity coefficients, product measures, relative weights, all-possible-subsets regression, dominance analysis, commonality analysis, and adjusted effect sizes.
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2024-01-16 |
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r-yarrr
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public |
Contains a mixture of functions and data sets referred to in the introductory e-book "YaRrr!: The Pirate's Guide to R". The latest version of the e-book is available for free at <https://www.thepiratesguidetor.com>.
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2024-01-16 |
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r-ypmodel
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public |
Inference procedures accommodate a flexible range of hazard ratio patterns with a two-sample semi-parametric model. This model contains the proportional hazards model and the proportional odds model as sub-models, and accommodates non-proportional hazards situations to the extreme of having crossing hazards and crossing survivor functions. Overall, this package has four major functions: 1) the parameter estimation, namely short-term and long-term hazard ratio parameters; 2) 95 percent and 90 percent point-wise confidence intervals and simultaneous confidence bands for the hazard ratio function; 3) p-value of the adaptive weighted log-rank test; 4) p-values of two lack-of-fit tests for the model. See the included "read_me_first.pdf" for brief instructions. In this version (1.1), there is no need to sort the data before applying this package.
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2024-01-16 |
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r-yll
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public |
Compute the standard expected years of life lost (YLL), as developed by the Global Burden of Disease Study (Murray, C.J., Lopez, A.D. and World Health Organization, 1996). The YLL is based on comparing the age of death to an external standard life expectancy curve. It also computes the average YLL, which highlights premature causes of death and brings attention to preventable deaths (Aragon et al., 2008).
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2024-01-16 |
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r-yfr
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public |
Facilitates download of financial data from Yahoo Finance <https://finance.yahoo.com/>, a vast repository of stock price data across multiple financial exchanges. The package offers a local caching system and support for parallel computation.
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2024-01-16 |
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r-yieldcurve
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public |
Modelling the yield curve with some parametric models. The models implemented are: Nelson, C.R., and A.F. Siegel (1987) <doi: 10.1086/296409>, Diebold, F.X. and Li, C. (2006) <doi: 10.1016/j.jeconom.2005.03.005> and Svensson, L.E. (1994) <doi: 10.3386/w4871>. The package also includes the data of the term structure of interest rate of Federal Reserve Bank and European Central Bank.
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2024-01-16 |
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r-yhatr
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public |
Deploy, maintain, and invoke models via the Yhat REST API.
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2024-01-16 |
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r-xrf
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public |
An implementation of the RuleFit algorithm as described in Friedman & Popescu (2008) <doi:10.1214/07-AOAS148>. eXtreme Gradient Boosting ('XGBoost') is used to build rules, and 'glmnet' is used to fit a sparse linear model on the raw and rule features. The result is a model that learns similarly to a tree ensemble, while often offering improved interpretability and achieving improved scoring runtime in live applications. Several algorithms for reducing rule complexity are provided, most notably hyperrectangle de-overlapping. All algorithms scale to several million rows and support sparse representations to handle tens of thousands of dimensions.
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2024-01-16 |
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r-yesno
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public |
Asks Yes-No questions with variable or custom responses.
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2024-01-16 |
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r-yatah
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public |
Provides functions to manage taxonomy when lineages are described with strings and ranks separated with special patterns like "|*__" or ";*__".
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2024-01-16 |
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r-yasp
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public |
A collection of string functions designed for writing compact and expressive R code. 'yasp' (Yet Another String Package) is simple, fast, dependency-free, and written in pure R. The package provides: a coherent set of abbreviations for paste() from package 'base' with a variety of defaults, such as p() for "paste" and pcc() for "paste and collapse with commas"; wrap(), bracket(), and others for wrapping a string in flanking characters; unwrap() for removing pairs of characters (at any position in a string); and sentence() for cleaning whitespace around punctuation and capitalization appropriate for prose sentences.
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2024-01-16 |
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r-yarr
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public |
A parser and a writer for 'WEKA' Attribute-Relation File Format <https://waikato.github.io/weka-wiki/arff_stable/> in pure R, with no dependencies. As opposed to other R implementations, this package can read standard (dense) as well as sparse files, i.e. those where each row does only contain nonzero components. Unlike 'RWeka', 'yarr' does not require any 'Java' installation nor is dependent on external software. This implementation is generalized from those in packages 'mldr' and 'mldr.datasets'.
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2024-01-16 |
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r-yaletoolkit
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public |
This collection of data exploration tools was developed at Yale University for the graphical exploration of complex multivariate data; barcode and gpairs now have their own packages. The big.read.table() function provided here may be useful for large files when only a subset is needed (but please see the note in the help page for this function).
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2024-01-16 |
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r-yacca
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public |
An alternative canonical correlation/redundancy analysis function, with associated print, plot, and summary methods. A method for generating helio plots is also included.
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2024-01-16 |
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r-xwf
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public |
Extrema-weighted feature extraction for varying length functional data. Functional data analysis method that performs dimensionality reduction based on predefined features and allows for quantile weighting. Method implemented as presented in van den Boom et al. (2018) <doi:10.1093/bioinformatics/bty120>.
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2024-01-16 |
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r-xls
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public |
Given the date column as an ascending entry, future errors are included in the sum of squares of error that should be minimized based on the number of steps and weights you determine. Thus, it is prevented that the variables affect each other's coefficients unrealistically.
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2024-01-16 |
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r-xtal
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public |
This is the tool set for crystallographer to design and analyze crystallization experiments, especially for ribosome from Mycobacterium tuberculosis.
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2024-01-16 |
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r-xtable
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None |
Coerce data to LaTeX and HTML tables.
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2024-01-16 |
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r-xrscc
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public |
This is a set of statistical quality control functions, that allows plotting control charts and its iterations, process capability for variable and attribute control, highlighting the xrs_gr() function, like a first iteration for variable chart, meanwhile the we_rules() function detects non random patterns in sample.
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2024-01-16 |
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r-xr
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public |
Support for interfaces from R to other languages, built around a class for evaluators and a combination of functions, classes and methods for communication. Will be used through a specific language interface package. Described in the book "Extending R".
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2024-01-16 |
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r-xlconnect
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public |
Provides comprehensive functionality to read, write and format Excel data.
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2024-01-16 |
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r-xopen
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public |
Cross platform solution to open files, directories or 'URLs' with their associated programs.
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2024-01-16 |
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r-xmlrpc2
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public |
The 'XML-RPC' is a remote procedure call protocol based on 'XML'. The 'xmlrpc2' package is inspired by the 'XMLRPC' package but uses the 'curl' and 'xml2' packages instead 'RCurl' and 'XML'.
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2024-01-16 |
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r-xlsxjars
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None |
The xlsxjars package collects all the external jars required for the xlxs package. This release corresponds to POI 3.10.1.
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2024-01-16 |
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r-xmlparsedata
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public |
Convert the output of 'utils::getParseData()' to an 'XML' tree, that one can search via 'XPath', and easier to manipulate in general.
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2024-01-16 |
