GitHub - bernatgel/CopyNumberPlots: R package to create plots representing copy number data using karyoploteR (original) (raw)

Project Status: Active – The project has reached a stable, usable state and is being actively developed.

CopyNumberPlots: create copy-number plots using karyoploteR

Introduction

Data visualisation is a powerful tool used for data analysis and exploration in many fields. Genomics data analysis is one of these fields where good visualisation tools can be of great help. The aim of CopyNumberPlotsis to offer the user an easy way to create copy-number related plots using the infrastructure provided by the R/Bioconductor package karyoploteR

In addition to a set of specialized plotting functions for copy-number analysis data and results (plotBAF, plotCopyNumberCalls, ...), CopyNumberPlots contains a number of data loading functions to help parsing and loading the results of widely used copy-number calling software such as DNAcopy,DECoN orCNVkit.

Finally, since CopyNumberPlots extends the functionality of karyoploteR, it is possible to combine the plotting functions of both packages to get the perfect figure for your data.

Installation

CopyNumberPlots is a Bioconductorpackage and to install it we have to useBiocManager

  if (!requireNamespace("BiocManager", quietly = TRUE))
      install.packages("BiocManager")
  BiocManager::install("CopyNumberPlots")

More information

You can find more information on CopyNumberPlots inits Bioconductor pageand specially in theCopyNumberPlots vignette.

You can find more information on how to use karyoploteR in thekaryoploteR tutorial.