Tidy_output

output from Cluster_plot_from_cell

If the FREEC_list is provided, then should be FALSE (default), otherwise TRUE

Genotype_provided

A list of dataframes (one for each sample), with as columns : (for the first column of the first sample the name of the sample),

SNV_list

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.

Tidy_output: Tidying output from EM

Description

Usage

Arguments