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r-desnowball
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public |
This package implements a statistical data mining method to compare whole genome gene expression profiles, with respect to the presence of a recurrent genetic disturbance event, to identify the affected target genes.
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2023-06-16 |
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r-dbemplikenorm
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public |
Test for joint assessment of normality
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2023-06-16 |
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r-dils
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public |
Combine multiple-relationship networks into a single weighted network. The approach is similar to factor analysis in the that contribution from each constituent network varies so as to maximize the information gleaned from the multiple-relationship networks. This implementation uses Principal Component Analysis calculated using 'prcomp' with bootstrap subsampling. Missing links are imputed using the method of Chen et al. (2012).
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2023-06-16 |
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r-dcv
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public |
This package performs several conventional Cross-validation statistical methods for climate-growth model in the climate reconstruction from tree rings, including Sign Test statistic, Reduction of Error statistic, Product Mean Test, Durbin-Watson statistic etc. This package is at its primary stage, the functions have not been tested exhaustively and more functions would be added in the comming days.
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2023-06-16 |
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r-dbemplikegof
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public |
Goodness-of-fit and two sample comparison tests using sample entropy
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2023-06-16 |
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r-deisotoper
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public |
Provides a low-level interface for a deisotoper container implemented in the 'Java' programming language and means of S3 helper functions for plotting and debugging isotopes of mass spectrometric data. The deisotoper algorithm detects and aggregates peaks which belong to the same isotopic cluster of a given mass spectrum.
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2023-06-16 |
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r-dequer
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public |
Queues, stacks, and 'deques' are list-like, abstract data types. These are meant to be very cheap to "grow", or insert new objects into. A typical use case involves storing data in a list in a streaming fashion, when you do not necessarily know how may elements need to be stored. Unlike R's lists, the new data structures provided here are not necessarily stored contiguously, making insertions and deletions at the front/end of the structure much faster. The underlying implementation is new and uses a head/tail doubly linked list; thus, we do not rely on R's environments or hashing. To avoid unnecessary data copying, most operations on these data structures are performed via side-effects.
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2023-06-16 |
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r-deamer
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public |
deamer provides deconvolution algorithms for the non-parametric estimation of the density f of an error-prone variable x with additive noise e. The model is y = x + e where the noisy variable y is observed, while x is unobserved. Estimation may be performed for i) a known density of the error ii) with an auxiliary sample of pure noise and iii) with an auxiliary sample of replicate (repeated) measurements. Estimation is performed using adaptive model selection and penalized contrasts.
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2023-06-16 |
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r-denpro
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public |
We provide tools to (1) visualize multivariate density functions and density estimates with level set trees, (2) visualize level sets with shape trees, (3) visualize multivariate data with tail trees, (4) visualize scales of multivariate density estimates with mode graphs and branching maps, and (5) visualize anisotropic spread with 2D volume functions and 2D probability content functions. Level set trees visualize mode structure, shape trees visualize shapes of level sets of unimodal densities, and tail trees visualize connected data sets. The kernel estimator is implemented but the package may also be applied for visualizing other density estimates.
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2023-06-16 |
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r-dataqualityr
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public |
The package performs variable level data quality checks including missing values, unique values, frequency tables, and generates summary statistics
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2023-06-16 |
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r-deepboost
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public |
Provides deep boosting models training, evaluation, predicting and hyper parameter optimising using grid search and cross validation. Based on Google's Deep Boosting algorithm, and Google's C++ implementation. Cortes, C., Mohri, M., & Syed, U. (2014) <http://machinelearning.wustl.edu/mlpapers/papers/icml2014c2_cortesb14>.
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2023-06-16 |
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r-datamaps
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public |
Easily create interactive choropleth maps then add bubbles and arcs by coordinates or region name. These maps can be used directly from the console, from 'RStudio', in 'Shiny' apps and 'R Markdown' documents. 'Shiny' proxies allow to interactively add arcs and bubbles, change choropleth values, or change labels.
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2023-06-16 |
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r-detsel
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public |
In the new era of population genomics, surveys of genetic polymorphism ("genome scans") offer the opportunity to distinguish locus-specific from genome wide effects at many loci. Identifying presumably neutral regions of the genome that are assumed to be influenced by genome-wide effects only, and excluding presumably selected regions, is therefore critical to infer population demography and phylogenetic history reliably. Conversely, detecting locus-specific effects may help identify those genes that have been, or still are, targeted by natural selection. The software package DetSel has been developed to identify markers that show deviation from neutral expectation in pairwise comparisons of diverging populations.
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2023-06-16 |
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r-cvxbiclustr
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public |
An iterative algorithm for solving a convex formulation of the biclustering problem.
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2023-06-16 |
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r-cstar
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public |
Functions that allow a researcher to examine the robustness of the substantive significance of their findings. Implements ideas set out in Esarey and Danneman (2014).
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2023-06-16 |
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r-cts
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public |
Functions to fit continuous time autoregressive models with the Kalman filter (Wang (2013) <doi:10.18637/jss.v053.i05>).
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2023-06-16 |
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r-cortools
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public |
Designed for analysis of the results of a Genome Wide Association Study. Includes tools to pull lists of Chromosome number and SNP position below a certain significance threshold, refine gene networks (including data I/O for Cytoscape), and check SNP base pair changes.
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2023-06-16 |
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r-dashboard
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public |
The dashboard package allows users to create web pages which display interactive data visualizations working in a standard modern browser. It displays them locally using the Rook server. Nor knowledge about web technologies nor Internet connection are required. D3.js is a JavaScript library for manipulating documents based on data. D3 helps the dashboard package bring data to life using HTML, SVG and CSS.
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2023-06-16 |
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r-darts
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public |
Are you aiming at the right spot in darts? Maybe not! Use this package to find your optimal aiming location. For a better explanation, go to http://www-stat.stanford.edu/~ryantibs/darts/ or see the paper "A Statistician Plays Darts".
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2023-06-16 |
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r-conjointchecks
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public |
Implementation of a procedure (Domingue, 2012; see also Karabatsos, 2001 and Kyngdon, 2011) to test the single and double cancellation axioms of conjoint measure in data that is dichotomously coded and measured with error.
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2023-06-16 |
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r-cumplyr
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public |
Extends ddply to allow calculation of cumulative quantities.
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2023-06-16 |
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r-crossreg
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public |
This package provides functions to calculate confidence intervals for crossover points of two simple linear regression lines using the non-linear regression, the delta method, the Fieller method, and the bootstrap methods.
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2023-06-16 |
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r-covreg
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public |
This package fits a simultaneous regression model for the mean vectors and covariance matrices of multivariate response variables, as described in Hoff and Niu (2012). The explanatory variables can be continuous or discrete. The current version of the package provides the Bayesian estimates.
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2023-06-16 |
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r-couchdb
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public |
Interface to the couchDB document database <http://couchdb.apache.org>.
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2023-06-16 |
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r-compglm
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public |
A function (which uses a similar interface to the `glm' function) for the fitting of a Conway-Maxwell-Poisson GLM. There are also various methods for analysis of the model fit. The package also contains functions for the Conway-Maxwell-Poisson distribution in a similar interface to functions `dpois', `ppois' and `rpois'. The functions are generally quick, since the workhorse functions are written in C++ (thanks to the Rcpp package).
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2023-06-16 |
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r-creditmetrics
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public |
A set of functions for computing the CreditMetrics risk model
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2023-06-16 |
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r-cpca
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public |
This package contains methods to perform Common Principal Component Analysis (CPCA). The stepwise method by Trendafilov is published in the current version. Please see Trendafilov (2010). Stepwise estimation of common principal components. Computational Statistics & Data Analysis, 54(12), 3446-3457. doi:10.1016/j.csda.2010.03.010
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2023-06-16 |
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r-coxphlb
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public |
Performs analysis of right-censored length-biased data using Cox model. It contains model fitting and checking, and the stationarity assumption test. The model fitting and checking methods are described in Qin and Shen (2010) <doi:10.1111/j.1541-0420.2009.01287.x> and Lee, Ning, and Shen (2018) <doi:10.1007/s10985-018-9422-y>.
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2023-06-16 |
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r-conting
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public |
Bayesian analysis of complete and incomplete contingency tables.
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2023-06-16 |
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r-dalex2
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public |
Machine Learning models are widely used and have various applications in classification or regression tasks. Due to increasing computational power, availability of new data sources and new methods, ML models are more and more complex. Models created with techniques like boosting, bagging of neural networks are true black boxes. It is hard to trace the link between input variables and model outcomes. They are used because of high performance, but lack of interpretability is one of their weakest sides. In many applications we need to know, understand or prove how input variables are used in the model and what impact do they have on final model prediction. DALEX2 is a collection of tools that help to understand how complex predictive models are working. DALEX2 is a part of DrWhy universe for tools for Explanation, Exploration and Visualisation for Predictive Models.
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2023-06-16 |
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r-crblocks
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public |
Implements a statistical test for comparing bar plots or histograms of categorical data derived from a randomized block repeated measures layout.
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2023-06-16 |
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r-coxridge
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public |
A package for fitting Cox models with penalized ridge-type partial likelihood. The package includes functions for fitting simple Cox models with all covariates controlled by a ridge penalty. The weight of the penalty is optimised by using a REML type-algorithm. Models with time varying effects of the covariates can also be fitted. Some of the covariates may be allowed to be fixed and thus not controlled by the penalty. There are three different penalty functions, ridge, dynamic and weighted dynamic. Time varying effects can be fitted without the need of an expanded dataset.
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2023-06-16 |
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r-complognormal
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public |
Computes the probability density function, cumulative distribution function, quantile function, random numbers of any composite model based on the lognormal distribution.
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2023-06-16 |
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r-cvtuningcov
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public |
This is a package for selecting tuning parameters based on cross-validation (CV) in regularized estimators of large covariance matrices. Four regularized methods are implemented: banding, tapering, hard-thresholding and soft-thresholding. Two types of matrix norms are applied: Frobenius norm and operator norm. Two types of CV are considered: K-fold CV and random CV. Usually K-fold CV use K-1 folds to train a model and the rest one fold to validate the model. The reverse version trains a model with 1 fold and validates with the rest with K-1 folds. Random CV randomly splits the data set to two parts, a training set and a validation set with user-specified sizes.
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2023-06-16 |
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r-crn
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public |
The crn package provides the core functions required to download and format data from the Climate Reference Network. Both daily and hourly data are downloaded from the ftp, a consolidated file of all stations is created, station metadata is extracted. In addition functions for selecting individual variables and creating R friendly datasets for them is provided.
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2023-06-16 |
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r-crp.csfp
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public |
Modelling credit risks based on the concept of "CreditRisk+", First Boston Financial Products, 1997 and "CreditRisk+ in the Banking Industry", Gundlach & Lehrbass, Springer, 2003.
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2023-06-16 |
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r-crac
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public |
R functions for cosmological research. The main functions are similar to the python library, cosmolopy.
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2023-06-16 |
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r-cmpprocess
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public |
A toolkit for flexible modeling of count processes where data (over- or under-) dispersion exists. Estimations can be obtained under two data constructs where one has: (1) data on number of events in an s-unit time interval, or (2) only wait-time data. This package is supplementary to the work set forth in Zhu et al. (2016) <doi:10.1080/00031305.2016.1234976>.
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2023-06-16 |
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r-cmpcontrol
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public |
The main purpose of this package is to juxtapose the different control limits obtained by modelling a data set through the COM-Poisson distribution vs. the classical Poisson distribution. Accordingly, this package offers the ability to compute the COM-Poisson parameter estimates and plot associated Shewhart control charts for a given data set.
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2023-06-16 |
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r-csp
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public |
Provides the Correlates of State Policy data set for easy use in R.
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2023-06-16 |
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r-convertgraph
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public |
Converts graphical file formats (SVG, PNG, JPEG, BMP, GIF, PDF, etc) to one another. The exceptions are the SVG file format that can only be converted to other formats and in contrast, PDF format, which can only be created from others graphical formats. The main purpose of the package was to provide a solution for converting SVG file format to PNG which is often needed for exporting graphical files produced by R widgets.
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2023-06-16 |
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r-corpus
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public |
Text corpus data analysis, with full support for international text (Unicode). Functions for reading data from newline-delimited 'JSON' files, for normalizing and tokenizing text, for searching for term occurrences, and for computing term occurrence frequencies, including n-grams.
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2023-06-16 |
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r-datamap
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public |
datamap utilizes variable bindings and objects of class "UserDefinedDatabase" to provide a simple mapping system to foreign objects. Maps can be used as environments or attached to the search path, and changes to either are persistent. Mapped foreign objects are fetched in real-time and are never cached by the mapping system.
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2023-06-16 |
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r-crskdiag
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public |
Provides the implementation of analytical and graphical approaches for checking the assumptions of the Fine and Gray model.
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2023-06-16 |
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r-condreg
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public |
Based on \url{http://statistics.stanford.edu/~ckirby/techreports/GEN/2012/2012-10.pdf}
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2023-06-16 |
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r-csrplus
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public |
Includes two functions to evaluate the hypothesis of complete spatial randomness (csr) in point processes. The function 'mwin' calculates quadrat counts to estimate the intensity of a spatial point process through the moving window approach proposed by Bailey and Gatrell (1995). Event counts are computed within a window of a set size over a fine lattice of points within the region of observation. The function 'pielou' uses the nearest neighbor test statistic and asymptotic distribution proposed by Pielou (1959) to compare the observed point process to one generated under csr. The value can be compared to that given by the more widely used test proposed by Clark and Evans (1954).
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2023-06-16 |
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r-cr
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public |
This package contains R-functions to perform power calculation in a group sequential clinical trial with censored survival data and possibly unequal patient allocation between treatment and control groups. The fuctions can also be used to determine the study duration in a clinical trial with censored survival data as the sum of the accrual duration, which determines the sample size in a traditional sense, and the follow-up duration, which more or less controls the number of events to be observed. This package also contains R functions and methods to display the computed results.
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2023-06-16 |
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r-comtradr
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public |
Interface with and extract data from the United Nations Comtrade API <https://comtrade.un.org/data/>. Comtrade provides country level shipping data for a variety of commodities, these functions allow for easy API query and data returned as a tidy data frame.
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2023-06-16 |
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r-cvxclustr
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public |
Alternating Minimization Algorithm (AMA) and Alternating Direction Method of Multipliers (ADMM) splitting methods for convex clustering.
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2023-06-16 |
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r-crantastic
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public |
Various R tools for http://crantastic.org/
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2023-06-16 |
