Sun, 20 Jan 2019

Package SUMMER updated to version 0.2.2 with previous version 0.2.1 dated 2018-07-16

Title: Spatio-Temporal Under-Five Mortality Methods for Estimation
Description: Provides methods for estimating, projecting, and plotting spatio-temporal under-five mortality rates, described in Mercer et al. (2015) <doi:10.1214/15-AOAS872>.
Author: Bryan D Martin [cre, aut], Zehang R Li [aut], Yuan Hsiao [aut], Jessica Godwin [aut], Jon Wakefield [aut], Samuel J Clark [aut]
Maintainer: Bryan D Martin <bmartin6@uw.edu>

Diff between SUMMER versions 0.2.1 dated 2018-07-16 and 0.2.2 dated 2019-01-20

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Package SemiCompRisks updated to version 3.2 with previous version 3.1 dated 2018-05-06

Title: Hierarchical Models for Parametric and Semi-Parametric Analyses of Semi-Competing Risks Data
Description: Hierarchical multistate models are considered to perform the analysis of independent/clustered semi-competing risks data. The package allows to choose the specification for model components from a range of options giving users substantial flexibility, including: accelerated failure time or proportional hazards regression models; parametric or non-parametric specifications for baseline survival functions and cluster-specific random effects distribution; a Markov or semi-Markov specification for terminal event following non-terminal event. While estimation is mainly performed within the Bayesian paradigm, the package also provides the maximum likelihood estimation approach for several parametric models. The package also includes functions for univariate survival analysis as complementary analysis tools.
Author: Kyu Ha Lee, Catherine Lee, Danilo Alvares, and Sebastien Haneuse
Maintainer: Kyu Ha Lee <klee15239@gmail.com>

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Package DescriptiveStats.OBeu updated to version 1.3.1 with previous version 1.3.0 dated 2018-05-08

Title: Descriptive Statistics 'OpenBudgets.eu'
Description: Estimate and return the needed parameters for visualizations designed for 'OpenBudgets.eu' <http://openbudgets.eu/> datasets. Calculate descriptive statistical measures in budget data of municipalities across Europe, according to the 'OpenBudgets.eu' data model. There are functions for measuring central tendency and dispersion of amount variables along with their distributions and correlations and the frequencies of categorical variables for a given dataset. Also, can be used generally to extract visualization parameters, convert them to 'JSON' format and use them as input in a different graphical interface.
Author: Kleanthis Koupidis [aut, cre], Aikaterini Chatzopoulou [aut], Charalampos Bratsas [aut]
Maintainer: Kleanthis Koupidis <koupidis@okfn.gr>

Diff between DescriptiveStats.OBeu versions 1.3.0 dated 2018-05-08 and 1.3.1 dated 2019-01-20

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Package TimeSeries.OBeu updated to version 1.2.3 with previous version 1.2.2 dated 2018-01-22

Title: Time Series Analysis 'OpenBudgets.eu'
Description: Estimate and return the needed parameters for visualizations designed for 'OpenBudgets.eu' <http://openbudgets.eu/> time series data. Calculate time series model and forecast parameters in budget time series data of municipalities across Europe, according to the 'OpenBudgets.eu' data model. There are functions for measuring deterministic and stochastic trend of the input time series data with 'ACF', 'PACF', 'Phillips Perron' test, 'Augmented Dickey Fuller (ADF)' test, 'Kwiatkowski-Phillips-Schmidt-Shin (KPSS)' test, 'Mann Kendall' test for monotonic trend and 'Cox and Stuart' trend test, decomposing with local regression models or 'stl' decomposition, fitting the appropriate 'arima' model and provide forecasts for the input 'OpenBudgets.eu' time series fiscal data. Also, can be used generally to extract visualization parameters convert them to 'JSON' format and use them as input in a different graphical interface.
Author: Kleanthis Koupidis [aut, cre], Charalampos Bratsas [aut]
Maintainer: Kleanthis Koupidis <koupidis@okfn.gr>

Diff between TimeSeries.OBeu versions 1.2.2 dated 2018-01-22 and 1.2.3 dated 2019-01-20

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Package geniusr updated to version 1.1.0 with previous version 1.0.0 dated 2017-12-06

Title: Tools for Working with the 'Genius' API
Description: Provides tools to interact nicely with the 'Genius' API <https://docs.genius.com/>. Search hosted content, extract different types of associated metadata and retrieve lyrics with ease.
Author: Ewen Henderson [aut, cre]
Maintainer: Ewen Henderson <ewenhenderson@gmail.com>

Diff between geniusr versions 1.0.0 dated 2017-12-06 and 1.1.0 dated 2019-01-20

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Package HiClimR updated to version 2.1.4 with previous version 2.1.3 dated 2019-01-11

Title: Hierarchical Climate Regionalization
Description: A tool for Hierarchical Climate Regionalization applicable to any correlation-based clustering. It adds several features and a new clustering method (called, 'regional' linkage) to hierarchical clustering in R ('hclust' function in 'stats' library): data regridding, coarsening spatial resolution, geographic masking, contiguity-constrained clustering, data filtering by mean and/or variance thresholds, data preprocessing (detrending, standardization, and PCA), faster correlation function with preliminary big data support, different clustering methods, hybrid hierarchical clustering, multivariate clustering (MVC), cluster validation, visualization of regionalization results, and exporting region map and mean timeseries into NetCDF-4 file.
Author: Hamada S. Badr [aut, cre], Benjamin F. Zaitchik [aut], Amin K. Dezfuli [aut]
Maintainer: Hamada S. Badr <badr@jhu.edu>

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Package cdata updated to version 1.0.5 with previous version 1.0.4 dated 2019-01-07

Title: Fluid Data Transformations
Description: Supplies higher-order fluid data transform operators that include pivot and anti-pivot as special cases. The methodology is describe in 'Zumel', 2018, "Fluid data reshaping with 'cdata'", <http://winvector.github.io/FluidData/FluidDataReshapingWithCdata.html> , doi:10.5281/zenodo.1173299 . Works on in-memory data or on remote data using 'rquery' and the 'DBI' database interface.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

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Package Cluster.OBeu updated to version 1.2.2 with previous version 1.2.1 dated 2018-02-12

Title: Cluster Analysis 'OpenBudgets.eu'
Description: Estimate and return the needed parameters for visualisations designed for 'OpenBudgets' <http://openbudgets.eu/> data. Calculate cluster analysis measures in Budget data of municipalities across Europe, according to the 'OpenBudgets' data model. It involves a set of techniques and algorithms used to find and divide the data into groups of similar observations. Also, can be used generally to extract visualisation parameters convert them to 'JSON' format and use them as input in a different graphical interface.
Author: Kleanthis Koupidis [aut, cre], Charalampos Bratsas [aut], Jaroslav Kuchar [ctb]
Maintainer: Kleanthis Koupidis <koupidis@okfn.gr>

Diff between Cluster.OBeu versions 1.2.1 dated 2018-02-12 and 1.2.2 dated 2019-01-20

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Package jose updated to version 1.0 with previous version 0.2 dated 2018-04-12

Title: JavaScript Object Signing and Encryption
Description: Read and write JSON Web Keys (JWK, rfc7517), generate and verify JSON Web Signatures (JWS, rfc7515) and encode/decode JSON Web Tokens (JWT, rfc7519). These standards provide modern signing and encryption formats that are the basis for services like OAuth 2.0 or LetsEncrypt and are natively supported by browsers via the JavaScript WebCryptoAPI.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

Diff between jose versions 0.2 dated 2018-04-12 and 1.0 dated 2019-01-20

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Package harrypotter updated to version 2.1.0 with previous version 2.0.0 dated 2018-12-13

Title: Palettes Generated from All "Harry Potter" Movies
Description: Implementation of the characteristic palette of the houses of Hogwarts School of magic, present in all Harry Potter movies.
Author: Alejandro Jimenez Rico [aut, cre], Alfredo Hernandez [ctb]
Maintainer: Alejandro Jimenez Rico <aljrico@gmail.com>

Diff between harrypotter versions 2.0.0 dated 2018-12-13 and 2.1.0 dated 2019-01-20

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New package bender with initial version 0.1.0
Package: bender
Type: Package
Title: Bender Client
Version: 0.1.0
Author: Dylan Heirstraeten
Maintainer: Valentin Thorey <valentin@dreem.com>
Description: R client for Bender Hyperparameters optimizer : <https://bender.dreem.com> The R client allows you to communicate with the Bender API and therefore submit some new trials within your R script itself.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports: R6, jsonlite, httr
NeedsCompilation: no
Packaged: 2019-01-15 08:42:05 UTC; dylan
Repository: CRAN
Date/Publication: 2019-01-20 18:30:03 UTC

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New package RGCxGC with initial version 1.0.0
Package: RGCxGC
Type: Package
Title: Preprocessing and Multivariate Analysis of Bidimensional Gas Chromatography Data
Version: 1.0.0
Date: 2019-01-09
Authors@R: c( person("Cristian", "Quiroz-Moreno", email = "cristianquirozd1997@gmail.com", role = c("aut", "cre")), person("Guilherme", "L. Alexandrino", email = "Alexandrinogl@gmail.com", role = "aut"), person("Noroska", "G.S. Mogollón", email = "gaby867@gmail.com", role = "aut"))
Author: Cristian Quiroz-Moreno [aut, cre], Guilherme L. Alexandrino [aut], Noroska G.S. Mogollón [aut]
Maintainer: Cristian Quiroz-Moreno <cristianquirozd1997@gmail.com>
Description: Implementation of chemometrics analysis for bidimensional gas chromatography data. This package can handle data for common scientific data format (netCDF) and fold it to 2D chromatogram. Then, it can perform preprocessing and multivariate analysis. In the preprocessing algorithms, baseline correction, smoothing, and peak alignment are available. While in multivariate analysis, multiway principal component analysis is incorporated.
License: MIT + file LICENSE
Imports: colorRamps (>= 2.3), Rdpack (>= 0.7), prettydoc (>= 0.2)
RdMacros: Rdpack
Depends: R (>= 3.5.0), stats, methods, graphics, RNetCDF (>= 1.9-1), ptw (>= 1.9-13)
LazyData: true
RoxygenNote: 6.1.1
Encoding: UTF-8
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-01-12 22:56:13 UTC; cizquime
Repository: CRAN
Date/Publication: 2019-01-20 17:30:03 UTC

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New package abstractr with initial version 0.1.0
Package: abstractr
Type: Package
Title: An R-Shiny Application for Creating Visual Abstracts
Version: 0.1.0
Author: Matthew Kumar <mattkumar@gmail.com>
Maintainer: Matthew Kumar <mattkumar@gmail.com>
Description: An R-Shiny application to create visual abstracts for original research. A variety of user defined options and formatting are included.
URL: https://matt-kumar.shinyapps.io/portfolio
Imports: shiny (>= 1.2.0), ggplot2 (>= 3.0.0), gridExtra (>= 2.3.0), colourpicker, shinythemes, emojifont, rintrojs
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-01-14 22:41:00 UTC; Kumar
Repository: CRAN
Date/Publication: 2019-01-20 17:20:03 UTC

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New package trendchange with initial version 0.1.0
Package: trendchange
Type: Package
Title: Innovative Trend Analysis and Time-Series Change Point Analysis
Version: 0.1.0
Author: Sandeep Kumar Patakamuri <sandeep.patakamuri@gmail.com>
Maintainer: Sandeep Kumar Patakamuri <sandeep.patakamuri@gmail.com>
Description: Innovative Trend Analysis is a graphical method to examine the trends in time series data. Sequential Mann-Kendall test uses the intersection of prograde and retrograde series to indicate the possible change point in time series data. Distribution free cumulative sum charts indicate location and significance of the change point in time series. Zekai, S. (2011). <doi:10.1061/(ASCE)HE.1943-5584.0000556>. Grayson, R. B. et al. (1996). Hydrological Recipes: Estimation Techniques in Australian Hydrology. Cooperative Research Centre for Catchment Hydrology, Australia, p. 125. Sneyers, S. (1990). On the statistical analysis of series of observations. Technical note no 5 143, WMO No 725 415. Secretariat of the World Meteorological Organization, Geneva, 192 pp.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Suggests: testthat, knitr, rmarkdown,covr
NeedsCompilation: no
Packaged: 2019-01-13 04:23:08 UTC; Deepu
Repository: CRAN
Date/Publication: 2019-01-20 16:10:03 UTC

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Package srvyr updated to version 0.3.4 with previous version 0.3.3 dated 2018-05-22

Title: 'dplyr'-Like Syntax for Summary Statistics of Survey Data
Description: 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.
Author: Greg Freedman Ellis [aut, cre], Thomas Lumley [ctb]
Maintainer: Greg Freedman Ellis <greg.freedman@gmail.com>

Diff between srvyr versions 0.3.3 dated 2018-05-22 and 0.3.4 dated 2019-01-20

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Package DHARMa updated to version 0.2.2 with previous version 0.2.1 dated 2019-01-17

Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed) Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed models. Currently supported are (generalized) linear mixed models from 'lme4' (classes 'lmerMod', 'glmerMod'), 'glmmTMB' and 'spaMM', generalized additive models ('gam' from 'mgcv'), 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and 'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well. The resulting residuals are standardized to values between 0 and 1 and can be interpreted as intuitively as residuals from a linear regression. The package also provides a number of plot and test functions for typical model misspecification problems, such as over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre] (Theoretical Ecology, University of Regensburg, Regensburg, Germany)
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>

Diff between DHARMa versions 0.2.1 dated 2019-01-17 and 0.2.2 dated 2019-01-20

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New package dapr with initial version 0.0.2
Package: dapr
Title: 'purrr'-Like Apply Functions Over Input Elements
Version: 0.0.2
Authors@R: person(given = "Michael W.", family = "Kearney", role = c("aut", "cre"), email = "kearneymw@missouri.edu", comment = c(ORCID = "0000-0002-0730-4694"))
Description: An easy-to-use, dependency-free set of functions for iterating over elements of various input objects. Functions are wrappers around base apply()/lapply()/vapply() functions but designed to have similar functionality to the mapping functions in the 'purrr' package <https://purrr.tidyverse.org/>. Specifically, function names more explicitly communicate the expected class of the output and functions also allow for the convenient shortcut of '~ .x' instead of the more verbose 'function(.x) .x'.
License: GPL-3
Encoding: UTF-8
Language: en
LazyData: true
RoxygenNote: 6.1.1
URL: https://github.com/mkearney/dapr
BugReports: https://github.com/mkearney/dapr/issues
Suggests: testthat, covr
NeedsCompilation: no
Packaged: 2019-01-13 20:48:34 UTC; mwk
Author: Michael W. Kearney [aut, cre] (<https://orcid.org/0000-0002-0730-4694>)
Maintainer: Michael W. Kearney <kearneymw@missouri.edu>
Repository: CRAN
Date/Publication: 2019-01-20 16:20:03 UTC

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New package cmenet with initial version 0.1.0
Package: cmenet
Type: Package
Title: Bi-Level Selection of Conditional Main Effects
Version: 0.1.0
Author: Simon Mak
Maintainer: Simon Mak <smak6@gatech.edu>
Description: Provides functions for implementing cmenet - a bi-level variable selection method for conditional main effects (see Mak and Wu (2018) <doi:10.1080/01621459.2018.1448828>). CMEs are reparametrized interaction effects which capture the conditional impact of a factor at a fixed level of another factor. Compared to traditional two-factor interactions, CMEs quantify more interpretable interaction effects in many problems of interest (e.g., genomics, molecular engineering, personalized medicine). The current implementation performs variable selection on only binary CMEs, but we are working on an extension for the continuous setting. This work was supported by USARO grant W911NF-14-1-0024.
License: GPL (>= 2)
LazyData: FALSE
Imports: Rcpp (>= 0.12.4), MASS, glmnet, hierNet
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 6.0.1
NeedsCompilation: yes
Packaged: 2019-01-13 03:13:15 UTC; smak6
Repository: CRAN
Date/Publication: 2019-01-20 16:10:06 UTC

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New package Bayesrel with initial version 0.1.0
Package: Bayesrel
Type: Package
Title: Bayesian Reliability Estimation
Version: 0.1.0
Author: Julius Pfadt and Don van den Bergh
Maintainer: Julius Pfadt <julius.pfadt@gmail.com>
Description: So far, it provides the most common single test reliability estimates, being: Coefficient Alpha, Guttman's lambda-2/-4/-6, greatest lower bound and Mcdonald's Omega. The Bayesian estimates are provided with credible intervals. The method for the Bayesian estimates, except for omega, is sampling from the posterior inverse Wishart for the covariance matrix based measures. See Murphy (2007) <https://www.seas.harvard.edu/courses/cs281/papers/murphy-2007.pdf>. Gibbs Sampling from the joint conditional distributions of a single factor model in the case of omega. See Lee (2007, ISBN:978-0-470-02424-9). Methods for the glb are from Moltner and Revelle (2018) <https://www.rdocumentation.org/packages/psych/versions/1.8.10/topics/glb.algebraic>; lambda-4 is from Benton (2015) <doi:10.1007/978-3-319-07503-7_19>; the principal factor analysis is from Schlegel (2017) <https://www.r-bloggers.com/iterated-principal-factor-method-of-factor-analysis-with-r/>; and the analytic alpha interval is from Bonnett and Wright (2014) <doi:10.1002/job.1960>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: LaplacesDemon, Rcsdp, MASS, ggplot2, ggridges, lavaan, plotrix, coda, methods, stats, graphics, Rdpack
RdMacros: Rdpack
RoxygenNote: 6.1.0
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2019-01-14 13:09:08 UTC; julius
Repository: CRAN
Date/Publication: 2019-01-20 16:40:02 UTC

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New package odds.n.ends with initial version 0.1.0
Package: odds.n.ends
Title: Odds Ratios, Contingency Table, and Model Significance from a Generalized Linear Model Object
Version: 0.1.0
Date: 2019-01-07
Author: Jenine Harris <harrisj@wustl.edu>
Maintainer: Jenine Harris <harrisj@wustl.edu>
Description: Computes odds ratios and 95% confidence intervals from a generalized linear model object. It also computes model significance with the chi-squared statistic and p-value and it computes model fit using a contingency table to determine the percent of observations for which the model correctly predicts the value of the outcome. Calculates model sensitivity and specificity.
License: CC0
Encoding: UTF-8
LazyData: true
Imports: MASS
NeedsCompilation: no
Packaged: 2019-01-11 23:33:15 UTC; jenine
Repository: CRAN
Date/Publication: 2019-01-20 15:40:03 UTC

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Package rotl updated to version 3.0.6 with previous version 3.0.5 dated 2018-09-29

Title: Interface to the 'Open Tree of Life' API
Description: An interface to the 'Open Tree of Life' API to retrieve phylogenetic trees, information about studies used to assemble the synthetic tree, and utilities to match taxonomic names to 'Open Tree identifiers'. The 'Open Tree of Life' aims at assembling a comprehensive phylogenetic tree for all named species.
Author: Francois Michonneau [aut, cre] (<https://orcid.org/0000-0002-9092-966X>), Joseph Brown [aut] (<https://orcid.org/0000-0002-3835-8062>), David Winter [aut] (<https://orcid.org/0000-0002-6165-0029>), Scott Chamberlain [rev] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Francois Michonneau <francois.michonneau@gmail.com>

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Package stranger (with last version 0.3.3) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-03-12 0.3.3
2018-01-25 0.3.2

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Package corrr (with last version 0.3.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-07-31 0.3.0
2016-10-10 0.2.1
2016-08-11 0.2.0
2016-07-08 0.1.0

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Package frequencies (with last version 0.1.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2017-06-08 0.1.1

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Package crossword.r updated to version 0.3.6 with previous version 0.3.5 dated 2018-01-19

Title: Generating Crosswords from Word Lists
Description: Generate crosswords from a list of words.
Author: Peter Meissner
Maintainer: Peter Meissner <retep.meissner@gmail.com>

Diff between crossword.r versions 0.3.5 dated 2018-01-19 and 0.3.6 dated 2019-01-20

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Package pkgnet updated to version 0.3.1 with previous version 0.3.0 dated 2019-01-02

Title: Get Network Representation of an R Package
Description: Tools from the domain of graph theory can be used to quantify the complexity and vulnerability to failure of a software package. That is the guiding philosophy of this package. 'pkgnet' provides tools to analyze the dependencies between functions in an R package and between its imported packages.
Author: Brian Burns [aut, cre], James Lamb [aut], Patrick Boueri [ctb], Jay Qi [aut]
Maintainer: Brian Burns <brian.burns@uptake.com>

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