as.joint.probs: as.joint.probs

In BIMIB-DISCo/TRONCO: TRONCO, an R package for TRanslational ONCOlogy

as.joint.probs

Description

Extract the joint probabilities from a TRONCO model. The return matrix is indexed with rownames/colnames which represent genotype keys - these can be resolved with function keysToNames. It is possible to specify a subset of events to build the matrix, a subset of models if multiple reconstruction have been performed. Also, either the observed or fit probabilities can be extracted.

Usage

as.joint.probs(
  x,
  events = as.events(x),
  models = names(x$model),
  type = "observed"
)

Arguments

x	A TRONCO model.
events	A subset of events as of as.events(x), all by default.
models	A subset of reconstructed models, all by default.
type	observed

Value

The joint probabilities in a TRONCO model.

Examples

data(test_model)
as.joint.probs(test_model)
as.joint.probs(test_model, events=as.events(test_model)[5:15,])

BIMIB-DISCo/TRONCO documentation built on Nov. 5, 2024, 3:44 a.m.