Dawn: Dawn

In MartinFXP/DawnRank: What the package does (short line)

Description

The most basic version of DawnRank. This is DawnRank for one Patient. Dawn differs from the other methods from calling DawnRank by being only for one patient and not including the matrix information. Nonetheless it is still quite useful for a quick hash for ranking a patient

Usage

Dawn(dawnMatrix, expressionVector, mutationVector, damping, maxit = 100,
  epsilon = 1e-04, goldStandard = NULL, patientTag = "defaultPatient")

Arguments

dawnMatrix,	the weighted adjacency
expressionVector,	the normalized expression vector
mutationVector,	a logical vector containing mutation information
damping,	the damping vector
maxit,	the maximum number of iterations to use, default 100
epsilon,	the lower magnitude cutoff, default 0.0001
goldStandard,	A list of common driver genes, used as a comparison. This is optional, default=NULL
patientTag,	an index for the patients

Value

the ranks. A list of 3 including a [[1]] output of all the ranks, [[2]] mutated ranks, [[3]] the steps of convergence

MartinFXP/DawnRank documentation built on Sept. 10, 2021, 11:25 p.m.