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Update object

Source: R/AllGenerics.R, R/updateObject-methods.R
updateObject.Rd

Update object

Usage

updateObject(object, ..., verbose = FALSE)

# S4 method for FgseaList
updateObject(object, deseq = NULL, alphaThreshold = NULL, ..., verbose = FALSE)

Arguments

object

Object.

deseq

DESeqAnalysis or NULL. Update object by slotting DESeqAnalysis, if necessary. This was added to object in 2020-09.

alphaThreshold

number(1). Alpha level used for GSEA. Note that this is not necessarily the alpha level used to generate DESeqResults object.

...

Additional arguments.

verbose

logical(1). Whether information about the update should be reported.

Value

Modified object.

Note

Updated 2022-04-27.

Author

Michael Steinbaugh

Examples

data(fgsea)

## FgseaList ====
object <- fgsea
object <- updateObject(object)
print(object)
#> FgseaList 0.9.0 of length 1
#> collectionNames: h_all_v7_0_symbols
#> contrastNames(2): condition_B_vs_A treatment_D_vs_C
#> rankedList: stat
#> alphaThreshold: 0.05