writeNormalizedDatasets: Write normalization matrices to file

In NormalyzerDE: Evaluation of normalization methods and calculation of differential expression analysis statistics

Description

Outputs each of the normalized datasets to the specified directory.

Usage

writeNormalizedDatasets(nr, jobdir, includePairwiseComparisons = FALSE,
  includeCvCol = FALSE, includeAnovaP = FALSE,
  normSuffix = "-normalized.txt",
  rawdataName = "submitted_rawdata.txt")

Arguments

nr	Results object.
jobdir	Path to output directory.
includePairwiseComparisons	Include p-values for pairwise comparisons.
includeCvCol	Include CV column in output.
includeAnovaP	Include ANOVA p-value in output.
normSuffix	String used to name output together with normalization names.
rawdataName	Name of output raw data file.

Value

None

Examples

data(example_summarized_experiment)
normObj <- getVerifiedNormalyzerObject("job_name", example_summarized_experiment)
normResults <- normMethods(normObj)
normResultsWithEval <- analyzeNormalizations(normResults)
outputDir <- tempdir()
writeNormalizedDatasets(normResultsWithEval, outputDir)

NormalyzerDE documentation built on Nov. 8, 2020, 8:22 p.m.