exportMat: Export the normalized MRexperiment dataset as a matrix.

In HCBravoLab/metagenomeSeq: Statistical analysis for sparse high-throughput sequencing

Export the normalized MRexperiment dataset as a matrix.

Description

This function allows the user to take a dataset of counts and output the dataset to the user's workspace as a tab-delimited file, etc.

Usage

exportMat(
  obj,
  log = TRUE,
  norm = TRUE,
  sep = "\t",
  file = "~/Desktop/matrix.tsv"
)

Arguments

obj	A MRexperiment object or count matrix.
log	Whether or not to log transform the counts - if MRexperiment object.
norm	Whether or not to normalize the counts - if MRexperiment object.
sep	Separator for writing out the count matrix.
file	Output file name.

Value

NA

See Also

cumNorm

Examples

data(lungData)
dataDirectory <- system.file("extdata", package="metagenomeSeq")
exportMat(lungData[,1:5],file=file.path(dataDirectory,"tmp.tsv"))
head(read.csv(file=file.path(dataDirectory,"tmp.tsv"),sep="\t"))

HCBravoLab/metagenomeSeq documentation built on Dec. 20, 2024, 4:06 p.m.