doseR

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Documentation for package ‘doseR’ version 1.16.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

dafs	dafs
dafsFilter	dafsFilter Function to filter expression data within an object.
generateStats	generateStats Statistics function to summarize expression data of an s.e. object.
getLibsizes3	getLibsizes3 Get Lib Sizes.
glSeq	glSeq LME4 wrapper.
hmel.dat	Hmel data set
iqrxFilter	iqrxFilter Function to filter expression data within an s.e. object.
make_RPKM	make_RPKM Make RPKM.
plotExpr	plotExpr Function to generate a boxplot (expression) for a SummarizedExperiment object based on the replicate data.
plotMA.se	plotMA.se Function to make MA plot.
plotRatioBoxes	plotRatioBoxes Function to boxplot density of ratios between two treatments (using groupings from an annotation column) within a SummarizedExperiment object.
plotRatioDensity	plotRatioDensity Function to plot density of ratios between two treatments (using groupings from an annotation column) within an object.
quantFilter	quantFilter Function to filter expression data of a SummarizedExperiment object.
se	Hmel data set
se.DM	se.DM Function to convert SummarizedExperiment object to LME4 input.
simpleFilter	simpleFilter Function to filter expression data of an object.
test_diffs	test_diffs Statistics function to summarize expression data of an object, using ratios between selected treatments.