Run diagnostic workflow of after JaBbA run to help evaluate quality of graph

A simple rework to the JaBbA:::QCStats function for more specific local use cases Provides a text file and quilt-like plot with metrics on convergence, RSME of copy number estimates, purity, ploidy, loose ends, and junctions.

Usage

get_jabba_qc_diagnostic(tumor_normal_id, jabba_workdir_path, verbose = T)

Arguments

tumor_normal_id

The name of the tumor/normal pair with completed JaBbA run

jabba_workdir_path

Path to the completed JaBbA run work directory

verbose

Output CLI during workflow, default: TRUE

Value

data.table of QC metrics and quilt-like ggplot

Examples

# get_jabba_qc_diagnostic(
# tumor_normal_id = "CG15-2647-T_vs_190585-N",
# jabba_workdir_path = "jAbBa/CG15-2647-T_vs_190585-N_jabba_workdir/")