Package: binGroup2 1.3.4

Brianna Hitt

binGroup2: Identification and Estimation using Group Testing

Methods for the group testing identification problem: 1) Operating characteristics (e.g., expected number of tests) for commonly used hierarchical and array-based algorithms, and 2) Optimal testing configurations for these same algorithms. Methods for the group testing estimation problem: 1) Estimation and inference procedures for an overall prevalence, and 2) Regression modeling for commonly used hierarchical and array-based algorithms.

Authors:Brianna Hitt [aut, cre], Christopher Bilder [aut], Frank Schaarschmidt [aut], Brad Biggerstaff [aut], Christopher McMahan [aut], Joshua Tebbs [aut], Boan Zhang [ctb], Michael Black [ctb], Peijie Hou [ctb], Peng Chen [ctb], Minh Nguyen [ctb]

binGroup2_1.3.4.tar.gz
binGroup2_1.3.4.zip(r-4.7-x86_64)binGroup2_1.3.4.zip(r-4.7-arm64)binGroup2_1.3.4.zip(r-4.6-x86_64)binGroup2_1.3.4.zip(r-4.6-arm64)
binGroup2_1.3.4.tar.gz(r-4.7-arm64)binGroup2_1.3.4.tar.gz(r-4.7-x86_64)binGroup2_1.3.4.tar.gz(r-4.6-arm64)binGroup2_1.3.4.tar.gz(r-4.6-x86_64)
binGroup2_1.3.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
binGroup2/json (API)

# Install 'binGroup2' in R:

install.packages('binGroup2', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bdhitt/bingroup2/issues

Pkgdown/docs site:https://bdhitt.github.io

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3

Datasets:

hivsurv - Data from an HIV surveillance project

On CRAN:

openblas cpp

2.70 score 81 downloads 1 mentions 37 exports 26 dependencies

Last updated from:ff4bb7fc42. Checks:10 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	174
linux-devel-x86_64	OK	169
source / vignettes	OK	255
linux-release-arm64	OK	163
linux-release-x86_64	OK	168
windows-devel-arm64	OK	299
windows-devel-x86_64	OK	216
windows-release-arm64	OK	294
windows-release-x86_64	OK	204
wasm-release	OK	148

Exports:Accuracy CompareConfig Config Config.opChar Config.OTC designEst designPower expectOrderBeta ExpTests ExpTests.halving ExpTests.opChar ExpTests.OTC ExpTests.Sterrett ExpTests.TOD GroupMembershipMatrix gtPower gtReg gtRegControl gtSim gtTest gtWidth halving IndProb informativeArrayProb opChar1 opChar2 operatingCharacteristics1 operatingCharacteristics2 OTC1 OTC2 pmf pmf.halving pmf.Sterrett propCI propDiffCI Sterrett TOD

Dependencies:cli cpp11 farver ggplot2 glue gmp gtable isoband labeling lifecycle partitions polynom R6 rBeta2009 rbibutils RColorBrewer Rcpp RcppArmadillo Rdpack rlang S7 scales sets vctrs viridisLite withr

Identification-through-group-testing

Operating characteristics | Optimal testing configuration

Rendered fromIdentification-through-group-testing.Rmdusingknitr::rmarkdown

Last update: 2023-11-14
Started: 2023-11-14

Help page	Topics
Extract the accuracy measures from group testing results	Accuracy
binGroup2: Identification and Estimation using Group Testing	binGroup2-package binGroup2
Extract coefficients from a fitted group testing model	coef.gtReg coefficients.gtReg
Compare group testing results	CompareConfig
Access the testing configurations returned from an object	Config
Extract the testing configuration from group testing results	Config.opChar
Extract the testing configuration from group testing results	Config.OTC
Optimal group size determination based on minimal MSE when estimating an overall prevalence	designEst
Number of groups or group size needed to achieve a power level in one parameter group testing	designPower
Determine a vector of probabilities for informative group testing algorithms	expectOrderBeta
Access the expected number of tests from an object	ExpTests
Extract the expected number of tests from testing configuration results	ExpTests.halving
Extract the expected number of tests from testing configuration results	ExpTests.opChar
Extract the expected number of tests from optimal testing configuration results	ExpTests.OTC
Extract the expected number of tests from testing configuration results	ExpTests.Sterrett
Extract the expected number of tests from testing configuration results	ExpTests.TOD
Extract the model formula from a fitted group testing model	formula.gtReg
Construct a group membership matrix for hierarchical algorithms	GroupMembershipMatrix
Power to reject a hypothesis for one proportion in group testing	gtPower
Fitting group testing regression models	gtReg
Auxiliary for controlling group testing regression	gtRegControl
Simulation function for group testing data	gtSim
Hypothesis test for one proportion in group testing	gtTest
Expected width of confidence intervals in group testing	gtWidth
Probability mass function for halving	halving
Data from an HIV surveillance project	hivsurv
Extract the individual probabilities used to calculate group testing results	IndProb
Arrange a matrix of probabilities for informative array testing	informativeArrayProb
Calculate operating characteristics for group testing algorithms that use a single-disease assay	opChar1 operatingCharacteristics1
Calculate operating characteristics for group testing algorithms that use a multiplex assay for two diseases	opChar2 operatingCharacteristics2
Find the optimal testing configuration for group testing algorithms that use a single-disease assay	OTC1
Find the optimal testing configuration for group testing algorithms that use a multiplex assay for two diseases	OTC2
Plot method for optimal testing configuration results	plot.OTC
Access the testing probability mass function returned from an object	pmf
Extract probability mass function (PMF) from group testing results	pmf.halving
Extract probability mass function (PMF) from group testing results	pmf.Sterrett
Predict method for 'gtReg'	predict.gtReg
Print method for objects of class "designEst"	print.designEst
Print method for objects of class "designPower"	print.designPower
Print method for 'gtReg'	print.gtReg
Print method for objects of class "gtTest"	print.gtTest
Print method for objects of class "halving"	print.halving
Print method for operating characteristics results	print.opChar
Print method for optimal testing configuration results	print.OTC
Print method for 'predict.gtReg'	print.predict.gtReg
Print method for objects of class "propCI"	print.propCI
Print method for objects of class "propDiffCI"	print.propDiffCI
Print method for objects of class "Sterrett"	print.Sterrett
Print method for 'summary.gtReg'	print.summary.gtReg
Print method for 'TOD'	print.TOD
Confidence intervals for one proportion in group testing	propCI
Confidence intervals for the difference of proportions in group testing	propDiffCI
Extract model residuals from a fitted group testing model	residuals.gtReg
Summary measures for Sterrett algorithms	Sterrett
Summary method for 'gtReg'	summary.gtReg
Summary method for operating characteristics results	summary.opChar
Summary method for optimal testing configuration results	summary.OTC
Summary measures for the Thresholded Optimal Dorfman (TOD) algorithm	TOD

Package: binGroup2 1.3.4

binGroup2: Identification and Estimation using Group Testing

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Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)