Description Usage Arguments Examples
An Illustrated Plot Summary (see: Article)
1 |
ratio |
the observed count of C reads at the ith CpG site divided by the observed count of C reads and T reads for each site i |
org |
The statue of the ith Cpg site, 0 : the site is unmethylated, 1 : the site is methylated |
t |
The location of the site i on a chromosome |
fit |
SMSC object |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 | #### MSC scenario
data(Data_MSC)
#### HHM scenario
data(Data_HHM)
y <- Data_MSC #### or y <- Data_HHM
origin = y$origin
ratio=y$Ccount/y$CT
position = y$position
fit0<-SMSC(y$Ccount, y$CT,y$position, method="MSC")
plot(ratio,origin,position,fit0)
fit1<-SMSC(y$Ccount, y$CT,y$position, method="KNN1")
plot(ratio,origin,position,fit1)
fit2<-SMSC(y$Ccount, y$CT,y$position, method="KNN2")
plot(ratio,origin,position,fit2)
fit3<-SMSC(y$Ccount, y$CT,y$position, method="Locfit")
plot(ratio,origin,position,fit3)
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