DENBth-methods: Generate DE table using the inference list generated by...

In Nanostring-Biostats/GeoDiff: Count model based differential expression and normalization on GeoMx RNA data

Generate DE table using the inference list generated by coefNBth or contrastNBth

Description

Generate DE table using the inference list generated by coefNBth or contrastNBth

Usage

DENBth(object, ...)

## S4 method for signature 'list'
DENBth(object, variable, NAto1 = TRUE, padj = TRUE, padj_method = "BH")

Arguments

object	inference list from coefNBth or contrastNBth
...	additional argument list that might be used
variable	needed to construct
NAto1	whether to replace NA in pvalue by 1
padj	whether to adjust p value
padj_method	p value adjustment method, default="BH"

Value

DEtab, DE table

Examples

data(NBthmDEmod2)
coeff <- coefNBth(NBthmDEmod2)
DEtab <- DENBth(coeff, variable = "regiontubule")

Nanostring-Biostats/GeoDiff documentation built on April 11, 2024, 5:31 a.m.