com.affymetrix.genoviz.demo.parser

Class SequenceParser

java.lang.Object

com.affymetrix.genoviz.demo.parser.SequenceParser

public class SequenceParser
extends Object

parses "Helt Format" sequence data. Each line is of the form: id name residues Note that the id fields in this file are meant to correspond to ids in a matching alignment data file.

See Also:

AlignmentParser

Constructor Summary

Constructors

Constructor and Description
SequenceParser()

Method Summary

Modifier and Type	Method and Description
static Vector	getSequences(BufferedReader chars) parsers the data coming from a stream of characters.
static Vector	getSequences(URL url) gets and parses data from somewhere on the net.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SequenceParser

public SequenceParser()

Method Detail

getSequences

public static Vector getSequences(URL url)

gets and parses data from somewhere on the net.

Parameters:

url - locates the data on an internet.

Returns:

a Vector of Sequences.

See Also:

Sequence

getSequences

public static Vector getSequences(BufferedReader chars)
                           throws IOException

parsers the data coming from a stream of characters.

Parameters:

chars - the BufferedReader holding the character stream

Returns:

a Vector of Sequences.

Throws:

IOException

See Also:

Sequence