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java.lang.Object org.strbio.mol.lib.BlastConstants
public class BlastConstants
Some constants used in BLAST 2.0.6.
Version 1.0, 1/26/99 - original version
Field Summary | |
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static java.lang.String |
oneLetterBLAST
one letter code used by BLAST. |
Constructor Summary | |
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BlastConstants()
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Method Summary | |
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static IMatrix |
blosum62()
The Blosum62 matrix, without the BZX* columns. |
static char |
num2ResBLAST(int x)
Convert a number to amino acid one letter code (0-25), in the order shown in oneLetterBlast |
static int |
res2NumBLAST(char x)
Convert an amino acid one letter code to a number (0-25), in the order shown in Residue.oneLetterBLAST. |
static DVector |
standardProb()
What BLAST thinks are the standard probabilities of each residue occurring. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public static final java.lang.String oneLetterBLAST
Constructor Detail |
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public BlastConstants()
Method Detail |
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public static final char num2ResBLAST(int x) throws java.lang.IllegalArgumentException
java.lang.IllegalArgumentException
- if your number is not 0-25.public static final int res2NumBLAST(char x) throws java.lang.IllegalArgumentException
java.lang.IllegalArgumentException
- if your code isn't an AA.Residue.oneLetterDefay
,
Residue.isRes(char)
public static final DVector standardProb()
public static final IMatrix blosum62()
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