runDiff {CytoTree} | R Documentation |
Calculating differentially expressed markers
runDiff(object, branch.id = NULL, branch.id.2 = NULL, verbose = FALSE)
object |
a CYT object |
branch.id |
vector. Branch ids use to run differentially expressed markers |
branch.id.2 |
vector. Branch ids use to run differentially expressed markers in compare with branch.id |
verbose |
logic. Whether to print calculation progress. |
A CYT object with cluster.id in meta.data
a data.frame with differential expressed markers
bulidTree
cyt.file <- system.file("extdata/cyt.rds", package = "CytoTree") cyt <- readRDS(file = cyt.file) DEG.table <- runDiff(cyt)