bigmemoryExtras

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see bigmemoryExtras.

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

Bioconductor version: 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>

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

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

browseVignettes("bigmemoryExtras")

Details

Package Archives

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