To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("bigmemoryExtras")

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

bigmemoryExtras

An extension of the bigmemory package with added safety, convenience, and a factor class.

Bioconductor version: Release (3.0)

This package defines a "BigMatrix" ReferenceClass which adds safety and convenience features to the filebacked.big.matrix class from the bigmemory package. BigMatrix protects against segfaults by monitoring and gracefully restoring the connection to on-disk data and it also protects against accidental data modification with a filesystem-based permissions system. We provide utilities for using BigMatrix-derived classes as assayData matrices within the Biobase package's eSet family of classes. BigMatrix provides some optimizations related to attaching to, and indexing into, file-backed matrices with dimnames. Additionally, the package provides a "BigMatrixFactor" class, a file-backed matrix with factor properties.

Author: Peter M. Haverty

Maintainer: Peter M. Haverty <phaverty at gene.com>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("bigmemoryExtras")

Documentation

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

browseVignettes("bigmemoryExtras")

 

PDF R Script bigmemoryExtras
PDF   Reference Manual
Text   NEWS

Details

biocViews DataRepresentation, Infrastructure, Software
Version 1.10.0
In Bioconductor since BioC 2.11 (R-2.15)
License Artistic-2.0
Depends R (>= 2.12), bigmemory (>= 4.3)
Imports methods, Biobase
Suggests biganalytics, BiocGenerics, RUnit
System Requirements
URL https://github.com/phaverty/bigmemoryExtras
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source bigmemoryExtras_1.10.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard) bigmemoryExtras_1.10.0.tgz
Mac OS X 10.9 (Mavericks) bigmemoryExtras_1.10.0.tgz
Browse/checkout source (username/password: readonly)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center