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java.lang.Object mobios.type.Sequence mobios.type.RNA
public class RNA
A compact representation of an RNA sequence.
Nested Class Summary | |
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static class |
RNA.RNASymbol
TODO |
Field Summary | |
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static Alphabet |
ALPHABET
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static WeightMatrix |
SimpleEditDistanceMatrix
The SimpleEditDistanceMatrix looks like: {0,1,1,1}, {1,0,1,1}, {1,1,0,1}, {1,1,1,0} |
Constructor Summary | |
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RNA(String sequenceID,
String sequence)
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Method Summary | |
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Symbol |
get(int index)
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Alphabet |
getAlphabet()
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String |
toString()
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Methods inherited from class mobios.type.Sequence |
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getSequenceID, numFragments, size |
Methods inherited from class java.lang.Object |
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equals, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
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public static final Alphabet ALPHABET
public static final WeightMatrix SimpleEditDistanceMatrix
Constructor Detail |
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public RNA(String sequenceID, String sequence)
sequenceID
- sequence
- Method Detail |
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public Alphabet getAlphabet()
getAlphabet
in class Sequence
public Symbol get(int index)
get
in class Sequence
index
- an integer index value
Symbol
corresponding to that index.public String toString()
toString
in class Sequence
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