ZIP {synergyfinder} | R Documentation |
A function to calculate delta synergy score based on zero interaction potency (ZIP) model
ZIP(response.mat, correction = TRUE, Emin = 0, Emax = 100, nan.handle = c("LL4", "L4"))
response.mat |
a dose-response matrix with concentrations as row names and column names |
correction |
a parameter to specify if the baseline correction is used or not. Defaults to TRUE. |
Emin |
the minimal effect of the drug used in the 4-parameter log-logistic function to fit the dose-response curve. If it is not NA, it is fixed the value assigned by the user. Defaults to 0. |
Emax |
the maximal effect of the drug used in the 4-parameter log-logistic function to fit the dose-response curve. If it is not NA, it is fixed the value assigned by the user. Defaults to 100. |
nan.handle |
a parameter to specify if L.4 function or LL.4 function is used when fitting with LL.4 produces NaNs. |
A matrix of delta scores for all the dose pairs for a drug combination. For a does pair with at least one zero concentration, 0 is used as the synergy score.
Liye He liye.he@helsinki.fi, Jing Tang jing.tang@helsinki.fi
Yadav B, Wennerberg K, Aittokallio T, Tang J. Searching for Drug Synergy in Complex Dose-Response Landscape Using an Interaction Potency Model. Computational and Structural Biotechnology Journal 2015; 13: 504-513.
data("mathews_screening_data") data <- ReshapeData(mathews_screening_data) delta.score <- ZIP(data$dose.response.mats[[1]])