compareMarker: To conduct defferential expression test in select.ident...

In yingyonghui/CommPath:

To conduct defferential expression test in select.ident between two CommPath objects

Description

To conduct defferential expression test in select.ident between two CommPath objects

Usage

compareMarker(
  object.1,
  object.2,
  select.ident,
  method = "wilcox.test",
  p.adjust = "BH",
  only.posi = FALSE,
  only.sig = TRUE
)

Arguments

object.1	CommPath object 1
object.2	CommPath object 2 for comparison
select.ident	Identity class of interest
method	Method used for differential expression test, either 'wilcox.test' or 't.test'
p.adjust	Method used for p value correction for multiple differential expression test; see p.adjust function for more information
only.posi	only logFC > 0
only.sig	only p_val_adj < 0.05

Value

Data frame of differentially expressed geens between the same clusters in two CommPath object

yingyonghui/CommPath documentation built on June 15, 2025, 6:29 a.m.