Sir,
//Genrating a suffixtree.
FiniteAlphabet alpha = DNATools.getDNA();
SymbolList sml = DNATools.createDNA("atggtggtcct");
SuffixTree suf = new SuffixTree(alpha);
suf.addSymbols(sml,sml.length);
now I have listed queries.
1. what is role of window size in addSymbols(SymbolList sml, int Window)
function.
2. why getFrequency(int i) always return the same value, whatever int i
value have been passed but the result is always same.
It should return the No. of motifs of int i length.
3. How can i print Suffix whatever are made in my SuffixTree.
4. How can i search a suffix of given length.
I know these are quite basic Queries for U, but your Suggestion is really
very Helpful to me.Because whatever i came to know about SuffuxTree on net
they all created Suffix without any window size, this thing puzzled me a
lot.
With Regards
Hemant
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