test_diffs: test_diffs Statistics function to summarize expression data...

In WaltersLab/doseR: doseR

test_diffs Statistics function to summarize expression data of an object, using ratios between selected treatments.

Description

generateStats is a summary function used on various expression data, using ratios between selected treatments.

Usage

test_diffs(se, groupings= NULL, treatment1=NULL, treatment2=NULL,
mode_mean=TRUE, LOG2=TRUE)

Arguments

se	A SummarizedExperiment object.
groupings	A grouping (annotation column); groupings="annotation.ZA".
treatment1	Symbol, treatment 1.
treatment2	Symbol, treatment 2.
mode_mean	Boolean, Calculate RowMeans or RowMedians.
LOG2	Boolean, Calculate LOG2.

Details

This function completes summary statistics of the expression of the supplied SummarizedExperiment object.

Value

Returns an invisible list of summary statistics, kruskal test and raw data of an object, using ratios between selected treatments.

Author(s)

AJ Vaestermark, JR Walters.

References

The "doseR" package, 2018 (in press).

Examples

data(hmel.se)
test_diffs(se, groupings='annotation.ZA',treatment1="Male",
treatment2="Female" )

WaltersLab/doseR documentation built on June 24, 2024, 2:51 a.m.