Registration Open for Bioc2024 July 24-26


This is the development version of cn.mops; for the stable release version, see cn.mops.

cn.mops - Mixture of Poissons for CNV detection in NGS data

Bioconductor version: Development (3.20)

cn.mops (Copy Number estimation by a Mixture Of PoissonS) is a data processing pipeline for copy number variations and aberrations (CNVs and CNAs) from next generation sequencing (NGS) data. The package supplies functions to convert BAM files into read count matrices or genomic ranges objects, which are the input objects for cn.mops. cn.mops models the depths of coverage across samples at each genomic position. Therefore, it does not suffer from read count biases along chromosomes. Using a Bayesian approach, cn.mops decomposes read variations across samples into integer copy numbers and noise by its mixture components and Poisson distributions, respectively. cn.mops guarantees a low FDR because wrong detections are indicated by high noise and filtered out. cn.mops is very fast and written in C++.

Author: Guenter Klambauer [aut], Gundula Povysil [cre]

Maintainer: Gundula Povysil <povysil at>

Citation (from within R, enter citation("cn.mops")):


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

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

# The following initializes usage of Bioc devel


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:

cn.mops: Manual for the R package PDF R Script
Reference Manual PDF


biocViews CellBiology, CopyNumberVariation, Genetics, HapMap, Homo_sapiens, Sequencing, Software
Version 1.51.0
In Bioconductor since BioC 2.9 (R-2.14) (12.5 years)
License LGPL (>= 2.0)
Depends R (>= 3.5.0), methods, utils, stats, graphics, parallel, GenomicRanges
Imports BiocGenerics, Biobase, IRanges, Rsamtools, GenomeInfoDb, S4Vectors
System Requirements
See More
Suggests DNAcopy
Linking To
Depends On Me panelcn.mops
Imports Me CopyNumberPlots
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package cn.mops_1.51.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) cn.mops_1.51.0.tgz
macOS Binary (arm64) cn.mops_1.51.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats