Description Usage Arguments Value Author(s) Examples
Generate a BAF-LRR plot with thorough annotations of canonical positions and data points.
1 | plotBAFLRR(sam.dat, cali.best, oo, origin = "on", para = para)
|
sam.dat |
numeric matrix, as returned from |
cali.best |
a list returned from |
oo |
Origin Cluster, as returned from |
origin |
if 'on', Origin Cluster will be highlighted on the plot. |
para |
list, parameters returned from |
NULL
Bo Li
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 | data(A0SD.BAF)
data(A0SD.LRR)
seg.dat=c()
for(CHR in c(8,9,10)){
baf=A0SD.BAF[A0SD.BAF[,2]==CHR,]
lrr=A0SD.LRR[A0SD.LRR[,2]==CHR,]
x=getSegChr(baf,lrr)
seg.dat=rbind(seg.dat,x)
}
dd.dat=seg.dat[,2:8]
rownames(dd.dat)=seg.dat[,1]
mode(dd.dat)='numeric'
para=getPara()
oo=getOrigin(dd.dat,para=para)
cali=getSampleAGP(dd.dat,oo,para=para)
plotBAFLRR(dd.dat,cali,oo,para=para)
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