Package: braidrm 1.0.3

braidrm: Fitting Combined Action with the BRAID Response Surface Model

Contains functions for evaluating, analyzing, and fitting combined action dose response surfaces with the Bivariate Response to Additive Interacting Doses (BRAID) model of combined action, along with tools for implementing other combination analysis methods, including Bliss independence, combination index, and additional response surface methods.

Authors:Anang Shelat [aut], Nathaniel R. Twarog [aut, cre]

braidrm_1.0.3.tar.gz
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braidrm.pdf |braidrm.html
braidrm/json (API)

# Install 'braidrm' in R:
install.packages('braidrm', repos = c('https://nathanieltwarog.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/nathanieltwarog/braidrm/issues

Datasets:

On CRAN:

Conda:

6.10 score 1 stars 1 packages 35 scripts 255 downloads 2 mentions 41 exports 1 dependencies

Last updated 6 months agofrom:57bddc615a. Checks:9 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 27 2025
R-4.5-winOKMar 27 2025
R-4.5-macOKMar 27 2025
R-4.5-linuxOKMar 27 2025
R-4.4-winOKMar 27 2025
R-4.4-macOKMar 27 2025
R-4.4-linuxOKMar 27 2025
R-4.3-winOKMar 27 2025
R-4.3-macOKMar 27 2025

Exports:blissDeviationblissReferencebraidrmcalcBraidBootstrapcalcBraidConfIntdeviationSurfaceestimateChouIndexestimateChouIndicesestimateCombinationIndexestimateCombinationIndicesestimateFlippedIAEestimateIAEevalBraidModelevalFlippedBraidModelevalMusycModelevalUrsaModelfindBestBraidfitBraidFlippedfitCoactiveBraid_partialfitCoactiveBraid_purefitMusycModelfitOppositionalBraid_AfitOppositionalBraid_BfitProtectiveBraid_AfitProtectiveBraid_BfitUrsaModelhsaDeviationhsaReferenceinvertBraidModelinvertBraidModel_AinvertBraidModel_BinvertFlippedBraidModelinvertFlippedBraidModel_AinvertFlippedBraidModel_BkappaPriorloeweDeviationloeweReferencereferenceSurfacezipDeviationzipReferencezipSmoothed

Dependencies:basicdrm

Additional Approaches

Rendered fromalternateMethods.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

Basic BRAID Usage

Rendered frombasicBraid.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

Bayesian Stabilization of kappa

Rendered frombayesianKappa.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

BRAID Confidence Intervals

Rendered fromconfidenceIntervals.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

Derivation of the BRAID Model

Rendered fromderivation.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

Setting BRAID Models and Constraints

Rendered frommodelsAndConstraints.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2024-09-18
Started: 2024-09-18

Readme and manuals

Help Manual

Help pageTopics
Example Additive SurfaceadditiveExample
Example Antagonistic SurfaceantagonisticExample
BRAID Response Surface Fittingbraidrm braidrm.default braidrm.formula print.braidrm print.summary.braidrm summary.braidrm
BRAID Parameter Confidence IntervalscalcBraidBootstrap
Generic BRAID confidence intervalscalcBraidConfInt
Example Coactive SurfacecoactiveExample
Non-interacting Reference SurfacesblissDeviation blissReference deviationSurface hsaDeviation hsaReference loeweDeviation loeweReference referenceSurface zipDeviation zipReference zipSmoothed
Combination IndexestimateChouIndex estimateChouIndices estimateCombinationIndex estimateCombinationIndices
BRAID Response Surface Combined PotencyestimateFlippedIAE estimateIAE estimateIAE.braidrm estimateIAE.braidrmflip estimateIAE.default
Evaluate the BRAID response surface modelevalBraidModel
Evaluate Flipped BRAID SurfacesevalFlippedBraidModel
Evaluate MuSyC Response SurfacesevalMusycModel
Evaluate URSA response surface modelevalUrsaModel
Select Best BRAID Response FitfindBestBraid findBestBraid.default findBestBraid.formula
Fit Flipped BRAID SurfacesfitBraidFlipped fitCoactiveBraid_partial fitCoactiveBraid_pure fitOppositionalBraid_A fitOppositionalBraid_B fitProtectiveBraid_A fitProtectiveBraid_B
MuSyC Response Surface FittingfitMusycModel fitMusycModel.default fitMusycModel.formula
URSA Response Surface FittingfitUrsaModel fitUrsaModel.default fitUrsaModel.formula
Example Partial or Incomplete SurfaceincompleteExample
Invert a BRAID Response Surface ModelinvertBraidModel invertBraidModel_A invertBraidModel_B
Invert Flipped BRAID SurfacesinvertFlippedBraidModel invertFlippedBraidModel_A invertFlippedBraidModel_B
Braid kappa Bayesian PriorkappaPrior
Example Oppositional SurfaceoppositionalExample
Example Protective SurfaceprotectiveExample
Example Synergistic SurfacesynergisticExample