README.md

In bernatgel/CopyNumberPlots: Create Copy-Number Plots using karyoploteR functionality

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 CopyNumberPlots is 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 or CNVkit.

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 Bioconductor package and to install it we have to use BiocManager

{r getPackage, eval=FALSE} if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("CopyNumberPlots")

More information

You can find more information on CopyNumberPlots in its Bioconductor page and specially in the CopyNumberPlots vignette.

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

bernatgel/CopyNumberPlots documentation built on Sept. 22, 2023, 1:53 a.m.