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

Bioconductor version: Release (3.1)

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>

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biocViews DataRepresentation, Infrastructure, Software
Version 1.12.0
In Bioconductor since BioC 2.11 (R-2.15) (3 years)
License Artistic-2.0
Depends R (>= 2.12), bigmemory (>= 4.3)
Imports methods, Biobase
Suggests biganalytics, BiocGenerics, RUnit
Depends On Me
Imports Me
Suggests Me
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