Streamer

DOI: 10.18129/B9.bioc.Streamer    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Streamer.

Enabling stream processing of large files

Bioconductor version: 3.9

Large data files can be difficult to work with in R, where data generally resides in memory. This package encourages a style of programming where data is 'streamed' from disk into R via a `producer' and through a series of `consumers' that, typically reduce the original data to a manageable size. The package provides useful Producer and Consumer stream components for operations such as data input, sampling, indexing, and transformation; see package?Streamer for details.

Author: Martin Morgan, Nishant Gopalakrishnan

Maintainer: Martin Morgan <martin.morgan at roswellpark.org>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("Streamer")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("Streamer")

 

PDF	R Script	Streamer: A simple example
PDF		Reference Manual

Details

biocViews	DataImport, Infrastructure, Software
Version	1.30.0
In Bioconductor since	BioC 2.9 (R-2.14) (8 years)
License	Artistic-2.0
Depends
Imports	methods, graph, RBGL, parallel, BiocGenerics
LinkingTo
Suggests	RUnit, Rsamtools(>= 1.5.53), GenomicAlignments, Rgraphviz
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	plethy
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	Streamer_1.30.0.tar.gz
Windows Binary	Streamer_1.30.0.zip
Mac OS X 10.11 (El Capitan)	Streamer_1.30.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Streamer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Streamer
Package Short Url	https://bioconductor.org/packages/Streamer/
Package Downloads Report	Download Stats