bigmemoryExtras

DOI: 10.18129/B9.bioc.bigmemoryExtras    

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

Bioconductor version: Release (3.6)

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>

Installation

To install this package, start R and enter:

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

Documentation

PDF		Reference Manual
Text		NEWS

Details

biocViews	DataRepresentation, Infrastructure, Software
Version	1.26.1
In Bioconductor since	BioC 2.11 (R-2.15) (5.5 years)
License	Artistic-2.0
Depends	R (>= 2.12), bigmemory (>= 4.5.31)
Imports	methods
LinkingTo
Suggests	testthat, BiocGenerics, BiocStyle, knitr
SystemRequirements
Enhances
URL	https://github.com/phaverty/bigmemoryExtras
Depends On Me
Imports Me	gCMAP
Suggests Me
Build Report

Package Archives

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

Source Package	bigmemoryExtras_1.26.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)	bigmemoryExtras_1.26.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/bigmemoryExtras
Package Short Url	http://bioconductor.org/packages/bigmemoryExtras/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive