Hi all,
I have a couple of 'novice' questions...
I can't seem to figure out how to create a SimpleGappedSymbolList from a String. I
want to parse "-AQSD--VP-" and create a SimpleGappedSymbolList from it.
ProteinTools has methods to return a SymbolList, Sequence, and GappedSequence from a
String, but not a GappedSymbolList. I understand GappedSequence extends
GappedSymbolList, but I want just the GappedSymbolList. Alternatively, is there a way
to get a GappedSymbolList from a GappedSequence?
A second question is that
ProteinTools.createGappedProteinSequence("-AQSD--VP-").seqString() results in the
String "XAQSD--VPX". The first and last '-' characters are now represented by 'X'. Is
this a special kind of gap symbol? If so, how can I distinguish between '-' and 'X'
Symbols?
Thanks in advance,
Don_______________________________________________
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