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braidrm

The goal of braidrm is to to make the best combination analysis available more robust, more accessible, and easier to use, so that drug combinations can be understood more completely and new therapies can be discovered more quickly.

Example

This example shows how to fit a BRAID response surface to data, and print a summary of the resulting fit.

library(braidrm)

# Fit a basic braid surface
braidFit <- braidrm(measure ~ concA + concB, synergisticExample,
                    model = "kappa2", getCIs=TRUE)

summary(braidFit)
#> Call:
#> braidrm.formula(formula = measure ~ concA + concB, data = synergisticExample, 
#>     model = "kappa2", getCIs = TRUE)
#> 
#>            Lo     Est     Hi
#> IDMA   0.8927  1.0398 1.1770
#> IDMB   0.8887  1.0259 1.1859
#> na     2.3640  2.9116 3.5669
#> nb     2.0537  2.4990 3.3016
#> kappa  1.7074  2.1258 2.5839
#> E0    -0.0766 -0.0300 0.0227
#> EfA    0.9281  1.0080 1.0245
#> EfB    0.9169  0.9848 1.0240
#> Ef         NA  1.0080     NA

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Version

Install

install.packages('braidrm')

Monthly Downloads

265

Version

1.0.3

License

GPL (>= 3)

Maintainer

Nathaniel Twarog

Last Published

September 26th, 2024

Functions in braidrm (1.0.3)

evalFlippedBraidModel

Evaluate Flipped BRAID Surfaces
invertBraidModel

Invert a BRAID Response Surface Model
invertFlippedBraidModel

Invert Flipped BRAID Surfaces
synergisticExample

Example Synergistic Surface
fitMusycModel

MuSyC Response Surface Fitting
protectiveExample

Example Protective Surface
incompleteExample

Example Partial or Incomplete Surface
evalMusycModel

Evaluate MuSyC Response Surfaces
kappaPrior

Braid kappa Bayesian Prior
oppositionalExample

Example Oppositional Surface
additiveExample

Example Additive Surface
evalBraidModel

Evaluate the BRAID response surface model
calcBraidBootstrap

BRAID Parameter Confidence Intervals
calcBraidConfInt

Generic BRAID confidence intervals
estimateCombinationIndices

Combination Index
braidrm

BRAID Response Surface Fitting
estimateIAE

BRAID Response Surface Combined Potency
deviationSurface

Non-interacting Reference Surfaces
fitBraidFlipped

Fit Flipped BRAID Surfaces
coactiveExample

Example Coactive Surface
antagonisticExample

Example Antagonistic Surface
findBestBraid

Select Best BRAID Response Fit
evalUrsaModel

Evaluate URSA response surface model
fitUrsaModel

URSA Response Surface Fitting