To install this package, start R and enter:

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

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

bamsignals

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see bamsignals.

Extract read count signals from bam files

Bioconductor version: 3.1

This package allows to efficiently obtain count vectors from indexed bam files. It counts the number of reads in given genomic ranges and it computes reads profiles and coverage profiles. It also handles paired-end data.

Author: Alessandro Mammana [aut, cre], Johannes Helmuth [aut]

Maintainer: Alessandro Mammana <mammana at molgen.mpg.de>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("bamsignals")
HTML R Script Introduction to the bamsignals package
PDF Reference Manual
Text NEWS

Details

biocViews Alignment, Coverage, DataImport, Sequencing, Software
Version 1.0.0
In Bioconductor since BioC 3.1 (R-3.2) (1 year)
License GPL-2
Depends R (>= 3.2.0)
Imports methods, BiocGenerics, Rcpp (>= 0.10.6), IRanges, GenomicRanges, zlibbioc
LinkingTo Rcpp, Rhtslib, zlibbioc
Suggests testthat (>= 0.9), Rsamtools, BiocStyle, knitr, rmarkdown
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.

Package Source bamsignals_1.0.0.tar.gz
Windows Binary bamsignals_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) bamsignals_1.0.0.tgz
Mac OS X 10.9 (Mavericks) bamsignals_1.0.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/bamsignals/tree/release-3.1
Package Short Url http://bioconductor.org/packages/bamsignals/
Package Downloads Report Download Stats

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