Description Usage Arguments Value Examples
View source: R/RaceID3_StemID2_class.R
This function allows plotting of normalized or z-score transformed pseudo-temporal expression profiles and permits highlighting of partitioning along the x-axis and the y-axis
1 2 |
x |
data frame with input data to show. Columns will be displayed on the x-axis and rows on the y-axis in the order given in |
xpart |
optional vector with integer values indicating partitioning of the data points along the x-axis. For instance, |
xcol |
optional vector with valid color names. The number of components has to be equal to the number of different values on |
xlab |
logical value. If |
xgrid |
logical value. If |
ypart |
optional vector with integer values indicating partitioning of the data points along the y-axis. For instance, |
ycol |
optional vector with valid color names. The number of components has to be equal to the number of different values on |
ylab |
logical value. If |
ygrid |
logical value. If |
None
1 2 3 4 5 6 7 8 9 10 11 12 | x <- intestine$x
y <- intestine$y
v <- intestine$v
tar <- c(6,9,13)
fb <- fateBias(x,y,tar,z=NULL,minnr=5,minnrh=10,nbfactor=5,use.dist=FALSE,seed=NULL,nbtree=NULL)
trc <- dptTraj(x,y,fb,trthr=.25,distance="euclidean",sigma=1000)
n <- trc[["t6"]]
fs <- filterset(v,n,minexpr=2,minnumber=1)
s1d <- getsom(fs,nb=1000,k=5,locreg=TRUE,alpha=.5)
ps <- procsom(s1d,corthr=.85,minsom=3)
plotheatmap(ps$all.e,xpart=y[n],xcol=fcol,ypart=ps$nodes,xgrid=FALSE,ygrid=TRUE,xlab=FALSE)
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