R: Calling Copy Number Alterations in Amplicon Sequencing Data

# Calling Copy Number Alterations in Amplicon Sequencing Data

## Documentation for package ‘ioncopy’ version 2.2.2

- DESCRIPTION file
- User guides, package vignettes and other documentation

## Help Pages

ioncopy-package | Calling copy number alterations in amplicon sequencing data
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 | 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