multiplot_trees

List of lists (tree generated and the probability associated with each tree)

result_list

Number of clusters found by QuantumClone

Coefficient of expansion for the texts in phylogenetic tree plots. Default is 0.8

Plots all trees created by the function Tree_generation. The red line means that mutations occured.

inference

phylogeny

Clonal

Using HTS data, clusters mutations in order to recreate putative
clones from the data provided. It requires genotype at the location of the
variant as well as the depth of coverage and number of reads supporting the
mutation. Additional information may be provided, such as the contamination
in the tumor sample. This package also provides a function QuantumCat() which
simulates data obtained from tumor sequencing.

multiplot_trees: Plots multiple trees

Description

Usage

Arguments

Examples