QuantumClone (version 1.0.0.6)

grbase: Computes gradient of function

Description

Computes gradient of function

Usage

grbase(fik, adj.factor, centers, Alt, Depth)

Arguments

fik

Evaluation of fik for previous iteration

adj.factor

Factor to compute the probability: makes transition between the cellularity of the clone and the frequency observed

centers

vector with cellularity of each clone (numeric vector, ordered by samples)

Alt

Matrix with number of draws in rows for a mutation/possibility, and samples in columns

Depth

Matrix with number of not draws (Depth - Alt) in rows for a mutation/possibility, and samples in columns

Examples

# NOT RUN {
fik<-matrix(c(1,0,0,1),nrow = 2)
adj.factor<-matrix(1/2,nrow =2 ,ncol =1)
centers<-c(0.25,0.75)
Alt<-c(125,375)
Depth<-c(1000,1000)
grbase(fik,adj.factor,centers,Alt,Depth)
# }