get_consensus: get_consensus

In MarkTranHS/MAPSCE: MAPping SubClonal Events

get_consensus

Description

get_consensus finds a consensus copy number results for a particular mapping result

Usage

get_consensus(data, tree, sens = 0.1, consensus = TRUE, consensus.only = F)

Arguments

data	a tibble with summarised mapping results, the output of using mapsce function
tree	a matrix listing all the branches in the tree, where the first column is the ancestral node and the second column is the descendant clone. By definition, the root node will only be present in the first column. The clone IDs must correspond to the cluster IDs in cluster_ccf and mutation_ccf.
sens	sensitivity of the comparison between the mapped values of different branches
consensus	printing of the consensus
consensus.only	limiting output to just the consensus, will output a vector instead of a data frame, only works with consensus = TRUE

Value

returns a matrix with consensus copy number states for every clone in a tree, labeling no consensus as NAs

Examples

data(example_data)

mapsce_result <- mapsce(
example_cn,
example_ccf,
example_mutational_ccf,
example_tree)

get_consensus(mapsce_result, example_tree)
# returns a consensus matrix for this example mapsce result

MarkTranHS/MAPSCE documentation built on Jan. 28, 2024, 6:29 p.m.