synergyfinder: Calculate and Visualize Synergy Scores for Drug Combinations
Version 1.2.0

Efficient implementations for all the popular synergy scoring models for drug combinations, including HSA, Loewe, Bliss and ZIP and visualization of the synergy scores as either a two-dimensional or a three-dimensional interaction surface over the dose matrix.

Browse man pages Browse package API and functions Browse package files

AuthorLiye He <liye.he@helsinki.fi>, Jing Tang <jing.tang@helsinki.fi>
Bioconductor views Software Statistical Method
Date of publicationNone
MaintainerLiye He <liye.he@helsinki.fi>
LicenseArtistic License 2.0
Version1.2.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("synergyfinder")

Man pages

BaselineCorrectionSD: Baseline correction for the dose-response matrix of drug...
Bliss: Synergy score based on Bliss model
CalculateSynergy: Calculate the synergy scores for drug combinations
FittingSingleDrug: Fitting single drug dose-response curve
HSA: HSA synergy score based on highest single agent (HSA) model
Loewe: Delta synergy score based on Loewe model
mathews_screening_data: A high-throughput drug combination screening data
PlotDoseResponse: Visualize the drug combination dose-response data
PlotSynergy: Drug interaction landscape
ReshapeData: Transform the response data from the data frame format to...
ZIP: Delta synergy score based on zero interaction potency (ZIP)...

Functions

BaselineCorrectionSD Man page Source code
Bliss Man page Source code
CalculateSynergy Man page Source code
FittingSingleDrug Man page Source code
HSA Man page Source code
Loewe Man page Source code
PlotDoseResponse Man page Source code
PlotSynergy Man page Source code
ReshapeData Man page Source code
ZIP Man page Source code
mathews_screening_data Man page

Files

DESCRIPTION
NAMESPACE
R
R/Bliss.R
R/Calculate_score.R
R/Correct_plate.R
R/Fitting_single_drug.R
R/HSA.R
R/Loewe.R
R/Plot_dose_response.R
R/Plot_synergy.R
R/Reshape_data.R
R/ZIP.R
R/mathews_screening_data.R
build
build/vignette.rds
data
data/mathews_screening_data.rda
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/synergyfinder.R
inst/doc/synergyfinder.Rnw
inst/doc/synergyfinder.pdf
man
man/BaselineCorrectionSD.Rd
man/Bliss.Rd
man/CalculateSynergy.Rd
man/FittingSingleDrug.Rd
man/HSA.Rd
man/Loewe.Rd
man/PlotDoseResponse.Rd
man/PlotSynergy.Rd
man/ReshapeData.Rd
man/ZIP.Rd
man/mathews_screening_data.Rd
vignettes
vignettes/synergyfinder.Rnw
synergyfinder documentation built on May 20, 2017, 9:24 p.m.