Dear all,
I am using kernlab package in R, and I have amino acid sequences with different
lenghts as input for a SVM and I need to go through this sequences using windows
(sliding or fixed) of size X.
Does anyone has any suggestions about which function I should use?
I thought I could use stringdot, but I am not sure whether it will do what I
need.., I have defined my stringdot as:
mystringdot <- stringdot(length = 7, lambda = 0.5, type =
"sequence", normalized = TRUE)
and my svm as:
ksvm(mydata[,1],data=mydata,type="C-svc",kernel=mystringdot,C=10)
but it doesn't work.
Thank you ever so much, Renata
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