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r-tukeytrend
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Provides wrapper functions to the multiple marginal model function mmm() of package 'multcomp' to implement the trend test of Tukey, Ciminera and Heyse (1985) <DOI:10.2307/2530666> for general parametric models.
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2023-06-16 |
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r-totalcopheneticindex
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For a given phylogenetic tree, calculates the Total Cophenetic Index. Reference: A. Mir, F. Rossello, L. A. Rotger (2013). A new balance index for phylogenetic trees. Math. Biosci. 241, 125-136 <doi:10.1016/j.mbs.2012.10.005>.
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2023-06-16 |
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r-tmcalculator
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The melting temperature of nucleic acid sequences can be calculated in three method, the Wallace rule (Thein & Wallace (1986) <doi:10.1016/S0140-6736(86)90739-7>), empirical formulas based on G and C content (Marmur J. (1962) <doi:10.1016/S0022-2836(62)80066-7>, Schildkraut C. (2010) <doi:10.1002/bip.360030207>, Wetmur J G (1991) <10.3109/10409239109114069>, Untergasser,A. (2012) <doi:10.1093/nar/gks596>, von Ahsen N (2001) <PMID:11673362>) and nearest neighbor thermodynamics (Breslauer K J (1986) <doi:10.1073/pnas.83.11.3746>, Sugimoto N (1996) <doi:10.1093/nar/24.22.4501>, Allawi H (1998) <doi:10.1093/nar/26.11.2694>, SantaLucia J (2004) <doi:10.1146/annurev.biophys.32.110601.141800>, Freier S (1986) <doi:10.1073/pnas.83.24.9373>, Xia T (1998) <doi:10.1021/bi9809425>, Chen JL (2012) <doi:10.1021/bi3002709>, Bommarito S (2000) <doi:10.1093/nar/28.9.1929>, Turner D H (2010) <doi:10.1093/nar/gkp892>, Sugimoto N (1995) <doi:10.1016/S0048-9697(98)00088-6>, Allawi H T (1997) <doi:10.1021/bi962590c>, Santalucia N (2005) <doi:10.1093/nar/gki918>), and it can also be corrected with salt ions and chemical compound (SantaLucia J (1996) <doi:10.1021/bi951907q>, SantaLucia J(1998) <doi:10.1073/pnas.95.4.1460>, Owczarzy R (2004) <doi:10.1021/bi034621r>, Owczarzy R (2008) <doi:10.1021/bi702363u>).
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2023-06-16 |
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r-tm1r
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Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken.
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2023-06-16 |
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r-tlm
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Computation of effects under linear, logistic and Poisson regression models with transformed variables. Logarithm and power transformations are allowed. Effects can be displayed both numerically and graphically in both the original and the transformed space of the variables.
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2023-06-16 |
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r-tipom
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TIPOM is based on a methodology that was developed in the 1960s by Bernardino Bagolini. The basic idea is to use the three simple dimensions of length, width and thickness of each lithic artefact to classify them in discrete groups and infer their function.
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2023-06-16 |
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r-tiobeindexr
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Get latest 'TIOBE' Programming Index Tables. The 'TIOBE' Programming Community index is an indicator of the popularity of programming languages from <https://www.tiobe.com/tiobe-index/>.
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2023-06-16 |
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r-tictoc
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This package provides the timing functions 'tic' and 'toc' that can be nested. One can record all timings while a complex script is running, and examine the values later. It is also possible to instrument the timing calls with custom callbacks. In addition, this package provides class 'Stack', implemented as a vector, and class 'List', implemented as a list, both of which support operations 'push', 'pop', 'first', 'last' and 'clear'.
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2023-06-16 |
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r-ternvis
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A suite of functions for visualising ternary probabilistic forecasts, as discussed in the paper by Jupp (2012) <doi:10.1098/rsta.2011.0350>.
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2023-06-16 |
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r-telegram
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R wrapper around the Telegram Bot API (http://core.telegram.org/bots/api) to access Telegram's messaging facilities with ease (e.g. you send messages, images, files from R to your smartphone).
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2023-06-16 |
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r-teda
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The typicality and eccentricity data analysis (TEDA) framework was put forward by Angelov (2013) <DOI:10.14313/JAMRIS_2-2014/16>. It has been further developed into multiple different techniques since, and provides a non-parametric way of determining how similar an observation, from a process that is not purely random, is to other observations generated by the process. This package provides code to use the batch and recursive TEDA methods that have been published.
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2023-06-16 |
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r-tbdiag
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This package provides functions to assist researchers working in the field of tuberculosis diagnostics. Functions for the interpretation of two popular interferon-gamma release assays are provided, and additional functionality is planned.
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2023-06-16 |
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r-tablematrix
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Provides two classes extending 'data.table' class. Simple 'tableList' class wraps 'data.table' and any additional structures together. More complex 'tableMatrix' class combines 'data.table' and 'matrix'. See <http://github.com/InferenceTechnologies/tableMatrix> for more information and examples.
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2023-06-16 |
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r-sym.arma
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Functions for fitting the Autoregressive and Moving Average Symmetric Model for univariate time series introduced by Maior and Cysneiros (2018), <doi:10.1007/s00362-016-0753-z>. Fitting method: conditional maximum likelihood estimation. For details see: Wei (2006), Time Series Analysis: Univariate and Multivariate Methods, Section 7.2.
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2023-06-16 |
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r-swissair
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Ozone, NOx (= Sum of nitrogen monoxide and nitrogen dioxide), nitrogen monoxide, ambient temperature, dew point, wind speed and wind direction at 3 sites around lake of Lucerne in Central Switzerland in 30 min time resolution for year 2004.
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2023-06-16 |
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r-sweidnumbr
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Structural handling of identity numbers used in the Swedish administration such as personal identity numbers ('personnummer') and organizational identity numbers ('organisationsnummer').
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2023-06-16 |
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r-support.bws
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Provides three basic functions that support an implementation of object case (Case 1) best-worst scaling: one for converting a two-level orthogonal main-effect design/balanced incomplete block design into questions; one for creating a data set suitable for analysis; and one for calculating count-based scores.
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2023-06-16 |
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r-subcultcon
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The three functions in the package compute the maximum likelihood estimates of the informants' competence scores, tests for two answer keys with known groups, and finds "best" split of the informants into sub-culture groups.
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2023-06-16 |
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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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2023-06-16 |
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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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2023-06-16 |
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r-ssanv
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A set of functions to calculate sample size for two-sample difference in means tests. Does adjustments for either nonadherence or variability that comes from using data to estimate parameters.
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2023-06-16 |
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r-ttutils
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Contains some auxiliary functions.
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2023-06-16 |
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r-tstutorial
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Interactive laboratory of Time Series based in Box-Jenkins methodology.
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2023-06-16 |
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r-tsmn
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Return the first four moments of the SMN distributions (Normal, Student-t, Pearson VII, Slash or Contaminated Normal).
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2023-06-16 |
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r-tsewgt
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Calculates total survey error (TSE) for a survey under multiple, different weighting schemes, using both scale-dependent and scale-independent metrics. Package works directly from the data set, with no hand calculations required: just upload a properly structured data set (see TESTWGT and its documentation), properly input column names (see functions documentation), and run your functions. For more on TSE, see: Weisberg, Herbert (2005, ISBN:0-226-89128-3); Biemer, Paul (2010) <doi:10.1093/poq/nfq058>; Biemer, Paul et.al. (2017, ISBN:9781119041672); etc.
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2023-06-16 |
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r-tsallisqexp
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Tsallis distribution also known as the q-exponential family distribution. Provide distribution d, p, q, r functions, fitting and testing functions. Project initiated by Paul Higbie and based on Cosma Shalizi's code.
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2023-06-16 |
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r-truncreg
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Estimation of models for truncated Gaussian variables by maximum likelihood.
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2023-06-16 |
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r-tropalgebra
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It includes functions like tropical addition, tropical multiplication for vectors and matrices. In tropical algebra, the tropical sum of two numbers is their minimum and the tropical product of two numbers is their ordinary sum. For more information see also I. Simon (1988) Recognizable sets with multiplicities in the tropical semi ring: Volume 324 Lecture Notes I Computer Science, pages 107-120 <doi: 10.1007/BFb0017135>.
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2023-06-16 |
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r-tpauc
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Tools for estimating and inferring two-way partial area under receiver operating characteristic curves (two-way pAUC), partial area under receiver operating characteristic curves (pAUC), and partial area under ordinal dominance curves (pODC). Methods includes Mann-Whitney statistic and Jackknife, etc.
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2023-06-16 |
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r-tourr
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Implements geodesic interpolation and basis generation functions that allow you to create new tour methods from R.
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2023-06-16 |
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r-tm.plugin.mail
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A plug-in for the tm text mining framework providing mail handling functionality.
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2023-06-16 |
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r-timeordered
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Approaches for incorporating time into network analysis. Methods include: construction of time-ordered networks (temporal graphs); shortest-time and shortest-path-length analyses; resource spread calculations; data resampling and rarefaction for null model construction; reduction to time-aggregated networks with variable window sizes; application of common descriptive statistics to these networks; vector clock latencies; and plotting functionalities. The package supports <doi:10.1371/journal.pone.0020298>.
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2023-06-16 |
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r-tfer
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Statistical interpretation of forensic glass transfer (Simulation of the probability distribution of recovered glass fragments).
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2023-06-16 |
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r-textgrid
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The software application Praat can be used to annotate waveform data (e.g., to mark intervals of interest or to label events). (See <http://www.fon.hum.uva.nl/praat/> for more information about Praat.) These annotations are stored in a Praat TextGrid object, which consists of a number of interval tiers and point tiers. An interval tier consists of sequential (i.e., not overlapping) labeled intervals. A point tier consists of labeled events that have no duration. The 'textgRid' package provides S4 classes, generics, and methods for accessing information that is stored in Praat TextGrid objects.
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2023-06-16 |
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r-tenispolar
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Implementation of ZENIT-POLAR substitution cipher method of encryption using by default the TENIS-POLAR cipher. This last cipher of encryption became famous through the collection of Brazilian books "Os Karas" by the author Pedro Bandeira. For more details, see "A Cryptographic Dictionary" (GC&CS, 1944).
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2023-06-16 |
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r-tempcont
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Method to estimate the effect of the trend in predictor variables on the observed trend of the response variable using mixed models with temporal autocorrelation. See Fernández-MartÃnez et al. (2017 and 2019) <doi:10.1038/s41598-017-08755-8> <doi:10.1038/s41558-018-0367-7>.
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2023-06-16 |
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r-table1heatmap
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Table 1 is the classical way to describe the patients in a clinical study. The amount of splits in the data in such a table is limited. Table1Heatmap draws a heatmap of all crosstables that can be generated with the data. Users can choose between showing the actual crosstables or direction of effect of associations, and highlight associations by number of patients or p-values.
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2023-06-16 |
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r-syntaxr
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A set of functions for generating 'SPSS' syntax files from the R environment.
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2023-06-16 |
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r-swagger
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A collection of 'HTML', 'JavaScript', and 'CSS' assets that dynamically generate beautiful documentation from a 'Swagger' compliant API: <https://swagger.io/specification/>.
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2023-06-16 |
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r-svgpanzoom
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This 'htmlwidget' provides pan and zoom interactivity to R graphics, including 'base', 'lattice', and 'ggplot2'. The interactivity is provided through the 'svg-pan-zoom.js' library. Various options to the widget can tailor the pan and zoom experience to nearly any user desire.
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2023-06-16 |
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r-survbootoutliers
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Three new methods to perform outlier detection in a survival context. In total there are six methods provided, the first three methods are traditional residual-based outlier detection methods, the second three are the concordance-based. Package developed during the work on the two following publications: Pinto J., Carvalho A. and Vinga S. (2015) <doi:10.5220/0005225300750082>; Pinto J.D., Carvalho A.M., Vinga S. (2015) <doi:10.1007/978-3-319-27926-8_22>.
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2023-06-16 |
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r-sue
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This is a package for the subsampling method of robust estimation of linear regression models
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2023-06-16 |
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r-sudoku
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Generates, plays, and solves Sudoku puzzles. The GUI playSudoku() needs package "tkrplot" if you are not on Windows.
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2023-06-16 |
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r-stylest
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Estimates distinctiveness in speakers' (authors') style. Fits models that can be used for predicting speakers of new texts. Methods developed in Spirling et al (2018) <doi:10.2139/ssrn.3235506> (working paper).
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2023-06-16 |
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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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2023-06-16 |
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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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2023-06-16 |
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r-stagedchoicesplinemix
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Analyzing a mixture of two-stage logistic regressions with fixed candidate knots. See Bruch, E., F. Feinberg, K. Lee (in press)<DOI:10.1073/pnas.1522494113>.
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2023-06-16 |
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r-ssm
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Creates an S4 class "SSM" and defines functions for fitting smooth supersaturated models, a polynomial model with spline-like behaviour. Functions are defined for the computation of Sobol indices for sensitivity analysis and plotting the main effects using FANOVA methods. It also implements the estimation of the SSM metamodel error using a GP model with a variety of defined correlation functions.
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2023-06-16 |
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r-ssdr
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Performs structured OLS (sOLS) and structured SIR (sSIR).
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2023-06-16 |
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r-srda
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Sparse redundancy analysis for high dimensional (biomedical) data. Directional multivariate analysis to express the maximum variance in the predicted data set by a linear combination of variables of the predictive data set. Implemented in a partial least squares framework, for more details see Csala et al. (2017) <doi:10.1093/bioinformatics/btx374>.
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2023-06-16 |
