To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bamsignals")

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

bamsignals

DOI: 10.18129/B9.bioc.bamsignals    

Extract read count signals from bam files

Bioconductor version: Release (3.6)

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("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bamsignals")

Documentation

HTML R Script Introduction to the bamsignals package
PDF   Reference Manual
Text   NEWS

Details

biocViews Alignment, Coverage, DataImport, Sequencing, Software
Version 1.10.0
In Bioconductor since BioC 3.1 (R-3.2) (2.5 years)
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 AneuFinder, chromstaR, normr
Suggests Me
Build Report  

Package Archives

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

Source Package bamsignals_1.10.0.tar.gz
Windows Binary bamsignals_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) bamsignals_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/bamsignals
Package Short Url http://bioconductor.org/packages/bamsignals/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: