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Convert segment data into a region by sample matrix to allow for other high level computational analyses.

Bioconductor version: Release (3.19)

This package provides tools to convert the output of segmentation analysis using DNAcopy to a matrix structure with overlapping segments as rows and samples as columns so that other computational analyses can be applied to segmented data

Author: Jianhua Zhang

Maintainer: J. Zhang <jzhang at>

Citation (from within R, enter citation("CNTools")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

NCTools HowTo PDF R Script
Reference Manual PDF


biocViews CopyNumberVariation, Microarray, Software
Version 1.60.0
In Bioconductor since BioC 2.5 (R-2.10) (14.5 years)
License LGPL
Depends R (>= 2.10), methods, tools, stats, genefilter
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Follow Installation instructions to use this package in your R session.

Source Package CNTools_1.60.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) CNTools_1.60.0.tgz
macOS Binary (arm64) CNTools_1.60.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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