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r-fittetra
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public |
Package fitTetra contains three functions that can be used to assign genotypes to a collection of tetraploid samples based on bialleleic marker assays. Functions fitTetra (to fit several models for one marker from the data and select the best fitting) or saveMarkerModels (calls fitTetra for multiple markers and saves the results to files) will probably be the most convenient to use. Function CodomMarker offers more control and fits one specified model for a given marker.
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2023-06-16 |
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r-findallroots
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public |
Find all root(s) of the equation,including complex roots;Find root(s) of the equation by dichotomy.Besides,in dichotomy, more than one interval can be given at a time.
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2023-06-16 |
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r-fhidata
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public |
Provides structural data for Norway. Datasets relating to maps, population in municipalities, vaccination coverage for childhood vaccines, municipality/county matching, and how different municipalities have merged/redistricted over time from 2006 to 2019.
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2023-06-16 |
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r-ffmetadata
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public |
A collection of functions that allows users to retrieve metadata for the Fragile Families challenge via a Web API (<http://api.metadata.fragilefamilies.princeton.edu>). Users can select and search metadata for relevant variables by filtering on different attribute names.
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2023-06-16 |
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r-fedreporter
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public |
Downloads data from Federal 'RePORTER' <https://api.federalreporter.nih.gov/> using the Federal 'RePORTER' API. Allows the user to search job projects from different government agencies.
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2023-06-16 |
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r-ic50
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public |
Calculation of IC50 values, automatic drawing of dose-response curves and validation of compound screens on 96- and 384-well plates.
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2023-06-16 |
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r-ic2
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public |
Lorenz and concentration curves; Atkinson, Generalized entropy and SGini indices (with decomposition)
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2023-06-16 |
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r-hyphy
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public |
A Bay Area high level phylogenetic analysis package mostly using the birth-death process. Analysis of species tree branching times and simulation of species trees under a number of different time variable birth-death processes. Analysis of gene tree species tree reconciliations and simulations of gene trees in species trees.
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2023-06-16 |
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r-hiertest
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public |
Implementation of the convex hierarchical testing (CHT) procedure introduced in Bien, Simon, and Tibshirani (2015) Convex Hierarchical Testing of Interactions. Annals of Applied Statistics. Vol. 9, No. 1, 27-42.
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2023-06-16 |
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r-hcci
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public |
This package calculates the interval estimates for the parameters of linear models heteroscedastic regression using bootstrap - (Wild Bootstrap) and double bootstrap-t (Wild Bootstrap). It is also possible to calculate confidence intervals using the percentile bootstrap and percentile bootstrap double. It is possible to calculate consistent estimates of the covariance matrix of the parameters of linear regression models with heteroskedasticity of unknown form. The package also provides function to calculate consistently the covariance matrix of the parameters of linear models with heteroskedasticity of unknown form.
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2023-06-16 |
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r-grapfa
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public |
gRapfa is for modelling discrete longitudinal data using acyclic probabilistic finite automata (APFA). The package contains functions for constructing APFA models from a given data using penalized likelihood methods. For graphical display of APFA models, gRapfa depends on 'igraph package'. gRapfa also contains an interface function to Beagle software that implements an efficient model selection algorithm.
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2023-06-16 |
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r-frm
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public |
Estimation and specification analysis of one- and two-part fractional regression models and calculation of partial effects.
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2023-06-16 |
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r-fdakma
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public |
It performs simultaneously clustering and alignment of a multidimensional or unidimensional functional dataset by means of k-mean alignment.
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2023-06-16 |
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r-facebook.s4
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public |
Provides an interface to the Facebook API and builds collections of elements that reflects the graph architecture of Facebook. See <https://developers.facebook.com/docs/graph-api> for more information.
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2023-06-16 |
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r-imputemissings
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public |
Compute missing values on a training data set and impute them on a new data set. Current available options are median/mode and random forest.
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2023-06-16 |
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r-hybridhclust
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public |
Hybrid hierarchical clustering via mutual clusters. A mutual cluster is a set of points closer to each other than to all other points. Mutual clusters are used to enrich top-down hierarchical clustering.
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2023-06-16 |
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r-horizon
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public |
Calculates horizon elevation angle and sky view factor from a digital terrain model (Dozier and Frew, 1990).
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2023-06-16 |
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r-gxm
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public |
Quantifying and testing gene-by-measured-environment interaction in behavior genetic designs.
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2023-06-16 |
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r-gsg
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public |
gsg (gam selection gradients) provides a unified approach to the regression analysis of selection from longitudinal data collected from natural populations.
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2023-06-16 |
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r-graticule
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public |
Create graticule lines and labels for maps. Control the creation of lines by setting their placement (at particular meridians and parallels) and extent (along parallels and meridians). Labels are created independently of lines.
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2023-06-16 |
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r-graphfactor
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public |
A Network Implementation of Fuzzy Sets: Build Network Objects from Multivariate Flat Files. For more information on fuzzy sets, refer to: Zadeh, L.A. (1964) <DOI:10.1016/S0019-9958(65)90241-X>.
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2023-06-16 |
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r-globalgsa
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public |
Implementation of three different Gene set analysis (GSA) algorithms for combining the individual pvalues of a set of genetic variats (SNPs) in a gene level pvalue. The implementation includes the selection of the best inheritance model for each SNP.
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2023-06-16 |
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r-geoboxplot
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public |
Make geographic box plot as detailed in Willmott et al. (2007).
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2023-06-16 |
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r-gar
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public |
The functions included are used to obtain initial authentication with Google Analytics as well as simple and organized data retrieval from the API. Allows for retrieval from multiple profiles at once.
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2023-06-16 |
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r-games
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public |
Provides estimation and analysis functions for strategic statistical models.
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2023-06-16 |
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r-g3viz
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public |
R interface for 'g3-lollipop' JavaScript library. Visualize genetic mutation data using an interactive lollipop diagram in RStudio or your browser.
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2023-06-16 |
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r-flury
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public |
Contains data sets from Bernard Flury (1997) A First Course in Multivariate Statistics, Springer NY
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2023-06-16 |
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r-faisalconjoint
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public |
It is used for systematic analysis of decisions based on attributes and its levels.
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2023-06-16 |
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r-factualr
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public |
Per the Factual.com website, "Factual is a platform where anyone can share and mash open, living data on any subject." The data is in the form of tables and is accessible via REST API. The factualR package is a thin wrapper around the Factual.com API, to make it even easier for people working with R to explore Factual.com data sets.
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2023-06-16 |
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r-estout
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public |
This package is intended to speedup the process of creating model-comparing tables common in Macroeconomics. The function collection stores the estimates of several models and formats it to a table of the form estimate starred and std.err. below. The default output is LaTeX but output to CSV for later editing in a spreadsheet tool is possible as well. It works for linear models (lm) and panel models from the "plm"-package (plm). Two further implemented functions "descsto" and "desctab" enable you to export descriptive statistics of data-frames and single variables to LaTeX and CSV.
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2023-06-16 |
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r-impactiv
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public |
In this package, you can find two functions proposed in Ding, Geng and Zhou (2011) to estimate direct and indirect causal effects with randomization and multiple-component intervention using instrumental variable method.
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2023-06-16 |
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r-hkclustering
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public |
Implements an ensemble algorithm for clustering combining a k-means and a hierarchical clustering approach.
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2023-06-16 |
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r-hilmm
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public |
Estimation of heritability with confidence intervals in linear mixed models.
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2023-06-16 |
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r-hcc
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public |
A new diagnostic check for model adequacy in regression and generalized linear models is implemented.
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2023-06-16 |
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r-hazus
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public |
Damage Functions (DFs), also known as Vulnerability Functions, associate the physical damage to a building or a structure (and also its contents and inventory) from natural disasters to financial damage. The Federal Emergency Management Agency (FEMA) in USA developed several thousand DFs and these serve as a benchmark in natural catastrophe modeling, both in academia and industry. However, these DFs and their documentation are buried within the HAZUS software are not easily accessible for analysis and visualization. This package provides more than 1300 raw DFs used by FEMA's HAZUS software and also functionality to extract and visualize DFs specific to the flood hazard. The vignette included with this package demonstrates its use.
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2023-06-16 |
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r-harmonicregression
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public |
Fits the first harmonics in a Fourier expansion to one or more time series. Trend elimination can be performed. Computed values include estimates of amplitudes and phases, as well as confidence intervals and p-values for the null hypothesis of Gaussian noise.
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2023-06-16 |
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r-gvcm.cat
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public |
Generalized structured regression models with regularized categorical effects, categorical effect modifiers, continuous effects and smooth effects.
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2023-06-16 |
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r-gtx
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public |
Assorted tools for genetic association analyses. The current focus is on implementing (either exactly or approximately) regression analyses using summary statistics instead of using subject-specific data. So far, functions exist to support multi-SNP risk score analyses, multi-SNP conditional regression analyses, and multi-phenotype analyses, using summary statistics. There are helper functions for reading and manipulating subject-specific genotype data, which provide a platform for calculating the summary statistics, or for using R to conduct other analyses not supported by specific GWAS analysis tools.
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2023-06-16 |
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r-graddescent
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public |
An implementation of various learning algorithms based on Gradient Descent for dealing with regression tasks. The variants of gradient descent algorithm are : Mini-Batch Gradient Descent (MBGD), which is an optimization to use training data partially to reduce the computation load. Stochastic Gradient Descent (SGD), which is an optimization to use a random data in learning to reduce the computation load drastically. Stochastic Average Gradient (SAG), which is a SGD-based algorithm to minimize stochastic step to average. Momentum Gradient Descent (MGD), which is an optimization to speed-up gradient descent learning. Accelerated Gradient Descent (AGD), which is an optimization to accelerate gradient descent learning. Adagrad, which is a gradient-descent-based algorithm that accumulate previous cost to do adaptive learning. Adadelta, which is a gradient-descent-based algorithm that use hessian approximation to do adaptive learning. RMSprop, which is a gradient-descent-based algorithm that combine Adagrad and Adadelta adaptive learning ability. Adam, which is a gradient-descent-based algorithm that mean and variance moment to do adaptive learning. Stochastic Variance Reduce Gradient (SVRG), which is an optimization SGD-based algorithm to accelerates the process toward converging by reducing the gradient. Semi Stochastic Gradient Descent (SSGD),which is a SGD-based algorithm that combine GD and SGD to accelerates the process toward converging by choosing one of the gradients at a time. Stochastic Recursive Gradient Algorithm (SARAH), which is an optimization algorithm similarly SVRG to accelerates the process toward converging by accumulated stochastic information. Stochastic Recursive Gradient Algorithm+ (SARAHPlus), which is a SARAH practical variant algorithm to accelerates the process toward converging provides a possibility of earlier termination.
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2023-06-16 |
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r-glrt
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public |
Functions to conduct four generalized logrank tests and a score test under a proportional hazards model
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2023-06-16 |
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r-geomedb
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public |
The Genomic Observatory Metadatabase (GeOMe Database) is an open access repository for geographic and ecological metadata associated with sequenced samples. This package is used to retrieve GeOMe data for analysis. See <http://www.geome-db.org> for more information regarding GeOMe.
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2023-06-16 |
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r-geode
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public |
Given expression data this package calculate a multivariate geometrical characterization of the differential expression and can also perform gene-set enrichment.
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2023-06-16 |
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r-gensemble
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public |
Generalized ensemble methods allowing arbitrary underlying models to be used. Currently only bagging is supported.
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2023-06-16 |
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r-genderizer
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public |
Utilizes the 'genderize.io' Application Programming Interface to predict gender from first names extracted from a text vector. The accuracy of prediction could be controlled by two parameters: counts of a first name in the database and probability of prediction.
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2023-06-16 |
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r-frmhet
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public |
Estimation and specification analysis of fractional regression models with neglected heterogeneity and/or endogenous covariates.
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2023-06-16 |
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r-fisheyer
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public |
fisheyeR provides tools for creating Interactive Data Visualizations by implementing ideas from Furnas, Munzner, Costa and Venturini.
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2023-06-16 |
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r-excerptr
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public |
This is an R interface to the python package 'excerpts' (<https://pypi.org/project/excerpts/>).
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2023-06-16 |
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r-etseed
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public |
Client to interact with the 'etcd' 'key-value' data store <https://github.com/coreos/etcd>. Functions included for managing directories, keys, nodes, and getting statistics.
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2023-06-16 |
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r-imis
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public |
IMIS algorithm draws samples from the posterior distribution. The user has to define the following R functions in advance: prior(x) calculates prior density of x, likelihood(x) calculates the likelihood of x, and sample.prior(n) draws n samples from the prior distribution.
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2023-06-16 |
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r-imap
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public |
Zoom in and out of maps or any supplied lines or points, with control for color, poly fill, and aspect.
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2023-06-16 |
