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r-string2adjmatrix
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Takes a list of character strings and forms an adjacency matrix for the times the specified characters appear together in the strings provided. For use in social network analysis and data wrangling. Simple package, comprised of three functions.
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2024-01-16 |
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r-stressstrength
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Reliability of (normal) stress-strength models and for building two-sided or one-sided confidence intervals according to different approximate procedures.
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2024-01-16 |
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r-stressr
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Forms queries to submit to the Cleveland Federal Reserve Bank web site's financial stress index data site. Provides query functions for both the composite stress index and the components data. By default the download includes daily time series data starting September 25, 1991. The functions return a class of either type easing or cfsi which contain a list of items related to the query and its graphical presentation. The list includes the time series data as an xts object. The package provides four lattice time series plots to render the time series data in a manner similar to the bank's own presentation.
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2024-01-16 |
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r-str2str
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Offers a suite of functions for converting to and from (atomic) vectors, matrices, data.frames, and (3D+) arrays as well as lists of these objects. It is an alternative to the base R as.<str>.<method>() functions (e.g., as.data.frame.array()) that provides more useful and/or flexible restructuring of R objects. To do so, it only works with common structuring of R objects (e.g., data.frames with only atomic vector columns).
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2024-01-16 |
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r-streammetabolism
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I provide functions to calculate Gross Primary Productivity, Net Ecosystem Production, and Ecosystem Respiration from single station diurnal Oxygen curves.
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2024-01-16 |
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r-stratifiedbalancing
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Performs Stratified Covariate Balancing with Markov blanket feature selection and use of synthetic cases. See Alemi et al. (2016) <DOI:10.1111/1475-6773.12628>.
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2024-01-16 |
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r-strategy
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Users can build and test customized quantitative trading strategies. Some quantitative trading strategies are already implemented, e.g. various moving-average filters with trend following approaches. The implemented class called "Strategy" allows users to access several methods to analyze performance figures, plots and backtest the strategies. Furthermore, custom strategies can be added, a generic template is available. The custom strategies require a certain input and output so they can be called from the Strategy-constructor.
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2024-01-16 |
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r-stplanr
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Tools for transport planning with an emphasis on spatial transport data and non-motorized modes. Create geographic "desire lines" from origin-destination (OD) data (building on the 'od' package); calculate routes on the transport network locally and via interfaces to routing services such as <https://cyclestreets.net/>; calculate route segment attributes such as bearing. The package implements the 'travel flow aggregration' method described in Morgan and Lovelace (2020) <doi:10.1177/2399808320942779>. Further information on the package's aim and scope can be found in the vignettes and in a paper in the R Journal (Lovelace and Ellison 2018) <doi:10.32614/RJ-2018-053>.
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2024-01-16 |
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r-stmomo
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Implementation of the family of generalised age-period-cohort stochastic mortality models. This family of models encompasses many models proposed in the actuarial and demographic literature including the Lee-Carter (1992) <doi:10.2307/2290201> and the Cairns-Blake-Dowd (2006) <doi:10.1111/j.1539-6975.2006.00195.x> models. It includes functions for fitting mortality models, analysing their goodness-of-fit and performing mortality projections and simulations.
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2024-01-16 |
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r-stopwords
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Provides multiple sources of stopwords, for use in text analysis and natural language processing.
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2024-01-16 |
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r-stopes
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Implements variable selection procedures for low to moderate size generalized linear regressions models. It includes the STOPES functions for linear regression (Capanu M, Giurcanu M, Begg C, Gonen M, Optimized variable selection via repeated data splitting, Statistics in Medicine, 2020, 19(6):2167-2184) as well as subsampling based optimization methods for generalized linear regression models (Marinela Capanu, Mihai Giurcanu, Colin B Begg, Mithat Gonen, Subsampling based variable selection for generalized linear models).
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2024-01-16 |
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r-stoichcalc
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Given a list of substance compositions, a list of substances involved in a process, and a list of constraints in addition to mass conservation of elementary constituents, the package contains functions to build the substance composition matrix, to analyze the uniqueness of process stoichiometry, and to calculate stoichiometric coefficients if process stoichiometry is unique. (See Reichert, P. and Schuwirth, N., A generic framework for deriving process stoichiometry in enviromental models, Environmental Modelling and Software 25, 1241-1251, 2010 for more details.)
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2024-01-16 |
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r-stochprofml
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New Version of the R package originally accompanying the paper "Parameterizing cell-to-cell regulatory heterogeneities via stochastic transcriptional profiles" by Sameer S Bajikar, Christiane Fuchs, Andreas Roller, Fabian J Theis and Kevin A Janes (PNAS 2014, 111(5), E626-635 <doi:10.1073/pnas.1311647111>). In this paper, we measure expression profiles from small heterogeneous populations of cells, where each cell is assumed to be from a mixture of lognormal distributions. We perform maximum likelihood estimation in order to infer the mixture ratio and the parameters of these lognormal distributions from the cumulated expression measurements. The main difference of this new package version to the previous one is that it is now possible to use different n's, i.e. a dataset where each tissue sample originates from a different number of cells. We used this on pheno-seq data, see: Tirier, S.M., Park, J., Preusser, F. et al. Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Sci Rep 9, 12367 (2019) <doi:10.1038/s41598-019-48771-4>).
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2024-01-16 |
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r-stmgp
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Rapidly build accurate genetic prediction models for genome-wide association or whole-genome sequencing study data by smooth-threshold multivariate genetic prediction (STMGP) method. Variable selection is performed using marginal association test p-values with an optimal p-value cutoff selected by Cp-type criterion. Quantitative and binary traits are modeled respectively via linear and logistic regression models. A function that works through PLINK software (Purcell et al. 2007 <DOI:10.1086/519795>, Chang et al. 2015 <DOI:10.1186/s13742-015-0047-8>) <https://www.cog-genomics.org/plink2> is provided. Covariates can be included in regression model.
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2024-01-16 |
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r-stinepack
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A consistently well behaved method of interpolation based on piecewise rational functions using Stineman's algorithm.
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2024-01-16 |
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r-sticky
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In base R, object attributes are lost when objects are modified by common data operations such as subset, filter, slice, append, extract etc. This packages allows objects to be marked as 'sticky' and have attributes persisted during these operations or when inserted into or extracted from list-like or table-like objects.
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2024-01-16 |
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r-stevedore
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Work with containers over the Docker API. Rather than using system calls to interact with a docker client, using the API directly means that we can receive richer information from docker. The interface in the package is automatically generated using the 'OpenAPI' (a.k.a., 'swagger') specification, and all return values are checked in order to make them type stable.
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2024-01-16 |
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r-stepreg
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Three most common types of stepwise regression including linear regression, logistic regression and cox proportional hazard regression can be performed to select best model with methods of forward selection, backward elimination, bidirectional selection and best subset selection. A widely used selection criteria are available for variable selection.
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2024-01-16 |
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r-stemmatology
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Explore and analyse the genealogy of textual or musical traditions, from their variants, with various stemmatological methods, mainly the disagreement-based algorithms suggested by Camps and Cafiero (2015) <doi:10.1484/M.LECTIO-EB.5.102565>.
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2024-01-16 |
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r-statsexpressions
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Utilities for producing dataframes with rich details for the most common types of statistical approaches and tests: parametric, nonparametric, robust, and Bayesian t-test, one-way ANOVA, correlation analyses, contingency table analyses, and meta-analyses. The functions are pipe-friendly and provide a consistent syntax to work with tidy data. These dataframes additionally contain expressions with statistical details, and can be used in graphing packages. This package also forms the statistical processing backend for 'ggstatsplot'. References: Patil (2021) <doi:10.21105/joss.03236>.
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2024-01-16 |
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r-stellar
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Manages and display stellar tracks and isochrones from Pisa low-mass database. Includes tools for isochrones construction and tracks interpolation.
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2024-01-16 |
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r-steiniv
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Routines for computing different types of linear estimators, based on instrumental variables (IVs), including the semi-parametric Stein-like (SPS) estimator, originally introduced by Judge and Mittelhammer (2004) <DOI:10.1198/016214504000000430>.
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2024-01-16 |
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r-steinernet
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A set of functions for finding and analysing Steiner trees. It has applications in biological pathway network analysis. Sadeghi (2013) <doi:10.1186/1471-2105-14-144>.
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2024-01-16 |
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r-stddiff
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Contains three main functions including stddiff.numeric(), stddiff.binary() and stddiff.category(). These are used to calculate the standardized difference between two groups. It is especially used to evaluate the balance between two groups before and after propensity score matching.
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2024-01-16 |
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r-stats19
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Tools to help download, process and analyse the UK road collision data collected using the 'STATS19' form. The data are provided as 'CSV' files with detailed road safety data about the circumstances of car crashes and other incidents on the roads resulting in casualties in Great Britain from 1979, the types (including make and model) of vehicles involved and the consequential casualties. The statistics relate only to personal casualties on public roads that are reported to the police, and subsequently recorded, using the 'STATS19' accident reporting form. See the Department for Transport website <https://www.data.gov.uk/dataset/cb7ae6f0-4be6-4935-9277-47e5ce24a11f/road-safety-data> for more information on these data.
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2024-01-16 |
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r-stcov
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Estimates a covariance matrix using Stein's isotonized covariance estimator, or a related estimator suggested by Haff.
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2024-01-16 |
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r-statmatch
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Integration of two data sources referred to the same target population which share a number of variables. Some functions can also be used to impute missing values in data sets through hot deck imputation methods. Methods to perform statistical matching when dealing with data from complex sample surveys are available too.
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2024-01-16 |
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r-statnet
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Statnet is a collection of packages for statistical network analysis that are designed to work together because they share common data representations and 'API' design. They provide an integrated set of tools for the representation, visualization, analysis, and simulation of many different forms of network data. This package is designed to make it easy to install and load the key 'statnet' packages in a single step. Learn more about 'statnet' at <http://www.statnet.org>. Tutorials for many packages can be found at <https://github.com/statnet/Workshops/wiki>. For an introduction to functions in this package, type help(package='statnet').
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2024-01-16 |
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r-states
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Create panel data consisting of independent states from 1816 to the present. The package includes the Gleditsch & Ward (G&W) and Correlates of War (COW) lists of independent states, as well as helper functions for working with state panel data and standardizing other data sources to create country-year/month/etc. data.
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2024-01-16 |
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r-statprograms
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A small collection of data on graduate statistics programs from the United States.
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2024-01-16 |
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r-statpermeco
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Statistical performance measures used in the econometric literature to evaluate conditional covariance/correlation matrix estimates (MSE, MAE, Euclidean distance, Frobenius distance, Stein distance, asymmetric loss function, eigenvalue loss function and the loss function defined in Eq. (4.6) of Engle et al. (2016) <doi:10.2139/ssrn.2814555>). Additionally, compute Eq. (3.1) and (4.2) of Li et al. (2016) <doi:10.1080/07350015.2015.1092975> to compare the factor loading matrix. The statistical performance measures implemented have been previously used in, for instance, Laurent et al. (2012) <doi:10.1002/jae.1248>, Amendola et al. (2015) <doi:10.1002/for.2322> and Becker et al. (2015) <doi:10.1016/j.ijforecast.2013.11.007>.
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2024-01-16 |
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r-statebins
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The 'cartogram' heatmaps generated by the included methods are an alternative to choropleth maps for the United States and are based on work by the Washington Post graphics department in their report on "The states most threatened by trade" (<http://www.washingtonpost.com/wp-srv/special/business/states-most-threatened-by-trade/>). "State bins" preserve as much of the geographic placement of the states as possible but have the look and feel of a traditional heatmap. Functions are provided that allow for use of a binned, discrete scale, a continuous scale or manually specified colors depending on what is needed for the underlying data.
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2024-01-16 |
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r-statgraph
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Contains statistical methods to analyze graphs, such as graph parameter estimation, model selection based on the GIC (Graph Information Criterion), statistical tests to discriminate two or more populations of graphs (ANOGVA - Analysis of Graph Variability), correlation between graphs, and clustering of graphs. References: Takahashi et al. (2012) <doi:10.1371/journal.pone.0049949>, Futija et al. (2017) <doi:10.3389/fnins.2017.00066>, Fujita et al. (2017) <doi:10.1016/j.csda.2016.11.016>, Tang et al. (2017) <doi:10.3150/15-BEJ789>, Tang et al. (2017) <doi:10.1080/10618600.2016.1193505>, Ghoshdastidar et al. (2017) <arXiv:1705.06168>, Ghoshdastidar et al. (2017) <arXiv:1707.00833>, Cerqueira et al. (2017) <doi:10.1109/TNSE.2017.2674026>, Fraiman and Fraiman (2018) <doi:10.1038/s41598-018-23152-5>, Fujita et al. (2019) <doi:10.1093/comnet/cnz028>.
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2024-01-16 |
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r-statar
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A set of tools inspired by 'Stata' to explore data.frames ('summarize', 'tabulate', 'xtile', 'pctile', 'binscatter', elapsed quarters/month, lead/lag).
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2024-01-16 |
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r-stat
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An interactive document on the topic of basic statistical analysis using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at <https://jarvisatharva.shinyapps.io/StatisticsPrimer/>.
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2024-01-16 |
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r-stampp
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Allows users to calculate pairwise Nei's Genetic Distances (Nei 1972), pairwise Fixation Indexes (Fst) (Weir & Cockerham 1984) and also Genomic Relationship matrixes following Yang et al. (2010) in mixed and single ploidy populations. Bootstrapping across loci is implemented during Fst calculation to generate confidence intervals and p-values around pairwise Fst values. StAMPP utilises SNP genotype data of any ploidy level (with the ability to handle missing data) and is coded to utilise multithreading where available to allow efficient analysis of large datasets. StAMPP is able to handle genotype data from genlight objects allowing integration with other packages such adegenet. Please refer to LW Pembleton, NOI Cogan & JW Forster, 2013, Molecular Ecology Resources, 13(5), 946-952. <doi:10.1111/1755-0998.12129> for the appropriate citation and user manual. Thank you in advance.
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2024-01-16 |
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r-statdataml
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Support for reading and writing files in StatDataML---an XML-based data exchange format.
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2024-01-16 |
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r-stat2data
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Datasets for the textbook Stat2: Modeling with Regression and ANOVA (second edition). The package also includes data for the first edition, Stat2: Building Models for a World of Data and a few functions for plotting diagnostics.
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2024-01-16 |
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r-startupmsg
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Provides utilities to create or suppress start-up messages.
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2024-01-16 |
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r-stars
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Reading, manipulating, writing and plotting spatiotemporal arrays (raster and vector data cubes) in 'R', using 'GDAL' bindings provided by 'sf', and 'NetCDF' bindings by 'ncmeta' and 'RNetCDF'.
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2024-01-16 |
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r-stacks
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Model stacking is an ensemble technique that involves training a model to combine the outputs of many diverse statistical models, and has been shown to improve predictive performance in a variety of settings. 'stacks' implements a grammar for 'tidymodels'-aligned model stacking.
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2024-01-16 |
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r-startup
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Adds support for R startup configuration via '.Renviron.d' and '.Rprofile.d' directories in addition to '.Renviron' and '.Rprofile' files. This makes it possible to keep private / secret environment variables separate from other environment variables. It also makes it easier to share specific startup settings by simply copying a file to a directory.
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2024-01-16 |
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r-staplr
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Provides functions to manipulate PDF files: fill out PDF forms; merge multiple PDF files into one; remove selected pages from a file; rename multiple files in a directory; rotate entire pdf document; rotate selected pages of a pdf file; Select pages from a file; splits single input PDF document into individual pages; splits single input PDF document into parts from given points.
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2024-01-16 |
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r-stargazer
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Produces LaTeX code, HTML/CSS code and ASCII text for well-formatted tables that hold regression analysis results from several models side-by-side, as well as summary statistics.
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2024-01-16 |
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r-standardize
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Tools which allow regression variables to be placed on similar scales, offering computational benefits as well as easing interpretation of regression output.
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2024-01-16 |
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r-stablelearner
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Graphical and computational methods that can be used to assess the stability of results from supervised statistical learning.
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2024-01-16 |
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r-stand
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Provides functions for the analysis of occupational and environmental data with non-detects. Maximum likelihood (ML) methods for censored log-normal data and non-parametric methods based on the product limit estimate (PLE) for left censored data are used to calculate all of the statistics recommended by the American Industrial Hygiene Association (AIHA) for the complete data case. Functions for the analysis of complete samples using exact methods are also provided for the lognormal model. Revised from 2007-11-05 'survfit~1'.
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2024-01-16 |
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r-stakeholderanalysis
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Proposes an original instrument for measuring stakeholder influence on the development of an infrastructure project that is carried through by a municipality, drawing on stakeholder classifications (Mitchell, Agle, & Wood, 1997) and input-output modelling (Hester & Adams, 2013). Mitchell R., Agle B.R., & Wood D.J. <doi:10.2307/259247> Hester, P.T., & Adams, K.M. (2013) <doi:10.1016/j.procs.2013.09.282>.
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2024-01-16 |
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r-stacomirtools
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S4 class wrappers for the 'ODBC' and Pool DBI connection, also provides some utilities to paste small datasets to clipboard, rename columns. It is used by the package 'stacomiR' for connections to the database. Development versions of 'stacomiR' are available in R-forge.
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2024-01-16 |
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r-srvyr
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Use piping, verbs like 'group_by' and 'summarize', and other 'dplyr' inspired syntactic style when calculating summary statistics on survey data using functions from the 'survey' package.
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2024-01-16 |
