assess.CNA              Significance assessment of copy number
                        alterations
calculate.CN            Calculation of copy numbers
call.CNA                Gene-wise or amplicon-wise calling of copy
                        number alterations
coverage                Coverage data of 154 amplicons in 184 breast
                        carcinomas
heatmap.CNA             Visualization of Copy Number and CNA Calls
ioncopy-package         Calling copy number alterations in amplicon
                        sequencing data
read.coverages          Helper function to read coverages from file
                        system
runIoncopy              Shiny app for Ioncopy
summarize.CNA           Summary of CNA calls
