To install this package, start R and enter:

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

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

BasicSTARRseq

DOI: 10.18129/B9.bioc.BasicSTARRseq    

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

Basic peak calling on STARR-seq data

Bioconductor version: Development (3.6)

Basic peak calling on STARR-seq data based on a method introduced in "Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq" Arnold et al. Science. 2013 Mar 1;339(6123):1074-7. doi: 10.1126/science. 1232542. Epub 2013 Jan 17.

Author: Annika Buerger

Maintainer: Annika Buerger <annika.buerger at ukmuenster.de>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("BasicSTARRseq")

 

PDF R Script BasicSTARRseq.pdf
PDF   Reference Manual
Text   NEWS

Details

biocViews Coverage, FunctionalGenomics, FunctionalPrediction, GeneRegulation, PeakDetection, Software
Version 1.5.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License LGPL-3
Depends GenomicRanges, GenomicAlignments
Imports S4Vectors, methods, IRanges, GenomeInfoDb, stats
LinkingTo
Suggests knitr
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package BasicSTARRseq_1.5.0.tar.gz
Windows Binary BasicSTARRseq_1.5.0.zip
Mac OS X 10.11 (El Capitan) BasicSTARRseq_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/BasicSTARRseq
Package Short Url http://bioconductor.org/packages/BasicSTARRseq/
Package Downloads Report Download Stats

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