To install this package, start R and enter:

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

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

CNEr

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see CNEr.

CNE Detection and Visualization

Bioconductor version: 3.4

Large-scale identification and advanced visualization of sets of conserved noncoding elements.

Author: Ge Tan <ge.tan09 at imperial.ac.uk>

Maintainer: Ge Tan <ge.tan09 at imperial.ac.uk>

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

To install this package, start R and enter:

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

HTML	R Script	CNE identification and visualisation
HTML	R Script	Pairwise whole genome alignment
PDF		Reference Manual
Text		NEWS
Text		LICENSE

biocViews	DataImport, GeneRegulation, Software, Visualization
Version	1.10.2
In Bioconductor since	BioC 2.14 (R-3.1) (3 years)
License	GPL-2 \| file LICENSE
Depends	R (>= 3.2.2)
Imports	Biostrings(>= 2.33.4), RSQLite (>= 0.11.4), GenomeInfoDb(>= 1.1.3), GenomicRanges(>= 1.23.16), rtracklayer(>= 1.25.5), XVector(>= 0.5.4), GenomicAlignments(>= 1.1.9), methods, S4Vectors(>= 0.9.25), IRanges(>= 2.5.27), readr (>= 0.2.2), BiocGenerics, tools, parallel, reshape2 (>= 1.4.1), ggplot2 (>= 2.1.0), poweRlaw (>= 0.60.3), annotate(>= 1.50.0), GO.db(>= 3.3.0), R.utils (>= 2.3.0), KEGGREST(>= 1.14.0)
LinkingTo	S4Vectors, IRanges, XVector
Suggests	Gviz(>= 1.7.4), BiocStyle, knitr, rmarkdown, testthat, BSgenome.Drerio.UCSC.danRer10, BSgenome.Hsapiens.UCSC.hg38, TxDb.Drerio.UCSC.danRer10.refGene, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Ggallus.UCSC.galGal3
SystemRequirements
Enhances
URL	https://github.com/ge11232002/CNEr
BugReports	https://github.com/ge11232002/CNEr/issues
Depends On Me
Imports Me	TFBSTools
Suggests Me
Build Report

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

Package Source	CNEr_1.10.2.tar.gz
Windows Binary	CNEr_1.10.2.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks)	CNEr_1.10.2.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/CNEr/tree/release-3.4
Package Short Url	http://bioconductor.org/packages/CNEr/
Package Downloads Report	Download Stats

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