To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("AneuFinder")

In most cases, you don't need to download the package archive at all.

AneuFinder

DOI: 10.18129/B9.bioc.AneuFinder    

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

Analysis of Copy Number Variation in Single-Cell-Sequencing Data

Bioconductor version: Development (3.7)

AneuFinder implements functions for copy-number detection, breakpoint detection, and karyotype and heterogeneity analysis in single-cell whole genome sequencing and strand-seq data.

Author: Aaron Taudt, Bjorn Bakker, David Porubsky

Maintainer: Aaron Taudt <aaron.taudt at gmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("AneuFinder")

Documentation

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

browseVignettes("AneuFinder")

 

PDF R Script A quick introduction to AneuFinder
PDF   Reference Manual
Text   NEWS

Details

biocViews CopyNumberVariation, GenomicVariation, HiddenMarkovModel, Sequencing, SingleCell, Software, WholeGenome
Version 1.7.2
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License Artistic-2.0
Depends R (>= 3.3), GenomicRanges, cowplot, AneuFinderData
Imports methods, utils, grDevices, graphics, stats, foreach, doParallel, S4Vectors, GenomeInfoDb, IRanges, Rsamtools, bamsignals, DNAcopy, ecp, Biostrings, GenomicAlignments, ggplot2, reshape2, ggdendro, ggrepel, ReorderCluster, mclust
LinkingTo
Suggests knitr, BiocStyle, testthat, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm10
SystemRequirements
Enhances
URL https://github.com/ataudt/aneufinder.git
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package AneuFinder_1.7.2.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) AneuFinder_1.7.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/AneuFinder
Package Short Url http://bioconductor.org/packages/AneuFinder/
Package Downloads Report Download Stats

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