as.adj.matrix: as.adj.matrix

Description Usage Arguments Value Examples

View source: R/as.functions.R

Description

Extract the adjacency matrix of a TRONCO model. The matrix is indexed with colnames/rownames 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 prima facie matrix or the post-regularization matrix can be extracted.

Usage

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as.adj.matrix(x, events = as.events(x), models = names(x$model), type = "fit")

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

Either the prima facie ('pf') or the post-regularization ('fit') matrix, 'fit' by default.

Value

The adjacency matrix of a TRONCO model.

Examples

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TRONCO documentation built on Nov. 8, 2020, 5:51 p.m.