newSparseDataSet: Create a new SparseDataSet

In mikelove/SparseData: Efficient Manipulation of Sparse Experiment Data

Description

Generate a new SparseDataSet from annotation data and a sparse matrix. For more details on the class see SparseDataSet-class.

For construction of phenoData and featureData objects see the introductory vignette or the ExpressionSet introdcutory vignette of the Biobase package.

The sparse data can be constructed using the Matrix function of the Matrix package, see the introductory vignette or check the man files from the Matrix package for more information on this class.

For calculation of statistics see calculateMeans and calculateTStats.

Usage

newSparseDataSet(sparseData, conditions, phenoData = NULL, featureData = NULL)

Arguments

sparseData	an object of class dgCMatrix
conditions	a factor of the conditions across which statistics will be calculated
phenoData	the phenotypic data
featureData	the feature data

Value

a SparseDataSet object

Author(s)

Michael Love

Examples

sds <- simulateSparseDataSet(5, c(5,5))
sds2 <- newSparseDataSet(sparseData(sds), conditions(sds), phenoData(sds), featureData(sds))

mikelove/SparseData documentation built on May 22, 2019, 10:52 p.m.