branchcells {RaceID} | R Documentation |
Differential Gene Expression between Links
Description
This function computes expression z-score between groups of cells from the same cluster residing on different links
Usage
branchcells(object, br)
Arguments
object |
|
br |
List containing two branches, where each component has to be two valid cluster numbers seperated by a |
Value
A list ot four components:
n |
a vector with the number of significant links for each cluster. |
scl |
a vector with the delta entropy for each cluster. |
k |
a vector with the StemID score for each cluster. |
diffgenes |
a vector with the StemID score for each cluster. |
Examples
sc <- SCseq(intestinalDataSmall)
sc <- filterdata(sc)
sc <- compdist(sc)
sc <- clustexp(sc)
sc <- findoutliers(sc)
sc <- comptsne(sc)
ltr <- Ltree(sc)
ltr <- compentropy(ltr)
ltr <- projcells(ltr)
ltr <- lineagegraph(ltr)
ltr <- comppvalue(ltr)
x <- branchcells(ltr,list("1.3","3.6"))
head(x$diffgenes$z)
plotmap(x$scl)
plotdiffgenes(x$diffgenes,names(x$diffgenes$z)[1])
[Package RaceID version 0.3.5 Index]