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Class iubio.bioseq.BioseqFiled

java.lang.Object
   |
   +----iubio.bioseq.Bioseq
           |
           +----iubio.bioseq.BioseqFiled

public class BioseqFiled
extends iubio.bioseq.Bioseq

Constructor Index

 o BioseqFiled()
 o BioseqFiled(byte[])
 o BioseqFiled(byte[], int, int)
 o BioseqFiled(char[])
 o BioseqFiled(char[], int, int)
 o BioseqFiled(File, boolean)
 o BioseqFiled(int)
 o BioseqFiled(String)

Method Index

 o basebyte(int)
 o clone()
 o copyFrom(File)
 o copyFrom(Object)
 o finalize()
 o getSeqStats(int, int)
 o getSeqtype()
 o isBytes()
 o length()
 o setbase(int, byte)
 o setbases(byte[])
 o toBytes(int)
 o toBytes(int, int, int)
 o toChars(int, int, int)

Constructors

 o BioseqFiled
 public BioseqFiled()
 o BioseqFiled
 public BioseqFiled(int maxlen)
 o BioseqFiled
 public BioseqFiled(byte b[])
 o BioseqFiled
 public BioseqFiled(byte b[],
                    int offs,
                    int len)
 o BioseqFiled
 public BioseqFiled(char c[])
 o BioseqFiled
 public BioseqFiled(char c[],
                    int offs,
                    int len)
 o BioseqFiled
 public BioseqFiled(java.lang.String s)
 o BioseqFiled
 public BioseqFiled(java.io.File f,
                    boolean readwrite)

Methods

 o copyFrom
 public void copyFrom(java.lang.Object ob)
Overrides:
copyFrom in class iubio.bioseq.Bioseq
 o copyFrom
 public void copyFrom(java.io.File f)
 o finalize
 public void finalize() throws java.lang.Throwable
Overrides:
finalize in class java.lang.Object
 o length
 public int length()
Overrides:
length in class iubio.bioseq.Bioseq
 o setbases
 public void setbases(byte theBases[])
Overrides:
setbases in class iubio.bioseq.Bioseq
 o setbase
 public void setbase(int i,
                     byte b)
Overrides:
setbase in class iubio.bioseq.Bioseq
 o basebyte
 public byte basebyte(int i)
Overrides:
basebyte in class iubio.bioseq.Bioseq
 o isBytes
 public boolean isBytes()
Overrides:
isBytes in class iubio.bioseq.Bioseq
 o toBytes
 public byte[] toBytes(int basepart)
Overrides:
toBytes in class iubio.bioseq.Bioseq
 o toBytes
 public byte[] toBytes(int offset,
                       int count,
                       int basepart)
Overrides:
toBytes in class iubio.bioseq.Bioseq
 o toChars
 public char[] toChars(int offset,
                       int count,
                       int basepart)
Overrides:
toChars in class iubio.bioseq.Bioseq
 o clone
 public java.lang.Object clone()
Overrides:
clone in class iubio.bioseq.Bioseq
 o getSeqtype
 public int getSeqtype()
Overrides:
getSeqtype in class iubio.bioseq.Bioseq
 o getSeqStats
 public iubio.bioseq.SeqInfo getSeqStats(int offset,
                                         int seqlen)
Overrides:
getSeqStats in class iubio.bioseq.Bioseq

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