java.io.Serializable
public class ClassifierSequence
extends edu.msu.cme.rdp.readseq.readers.Sequence
Constructor | Description |
---|---|
ClassifierSequence(edu.msu.cme.rdp.readseq.readers.Sequence seq) |
Creates new ParsedSequence.
|
ClassifierSequence(java.lang.String seqName,
java.lang.String desc,
java.lang.String seqString) |
Modifier and Type | Method | Description |
---|---|---|
int |
getGoodWordCount() |
Returns the number of words with valid bases.
|
ClassifierSequence |
getReversedSeq() |
Returns a Sequence object whose sequence string is the reverse complement
of the current rRNA sequence string.
|
int[] |
getWordIndexArr() |
|
boolean |
isReverse() |
Returns true if the sequence string is a minus strand.
|
protected void |
setSeqString(java.lang.String s) |
Sets the sequence string.
|
public ClassifierSequence(edu.msu.cme.rdp.readseq.readers.Sequence seq) throws java.io.IOException
java.io.IOException
public ClassifierSequence(java.lang.String seqName, java.lang.String desc, java.lang.String seqString) throws java.io.IOException
java.io.IOException
protected void setSeqString(java.lang.String s)
public int[] getWordIndexArr()
public boolean isReverse()
public ClassifierSequence getReversedSeq() throws java.io.IOException
java.io.IOException
public int getGoodWordCount()