util.parsers.fasta
Class PrintData

java.lang.Object
  extended by util.parsers.fasta.PrintData

public class PrintData
extends java.lang.Object


Constructor Summary
PrintData(java.lang.String directory)
           
 
Method Summary
 java.lang.String checkATG(java.lang.String sequence, int start)
           
 java.lang.String checkCAT(java.lang.String sequence, int start)
           
 int checkMul3(java.util.List<java.lang.Integer> list)
           
 java.lang.String checkStop(java.lang.String sequence, int last)
           
 java.lang.String checkStopReverse(java.lang.String sequence, int last)
           
 boolean extractDataEnsembl(java.io.File file, java.io.BufferedWriter writer)
           
 boolean extractDataFasta(java.io.File file, java.io.BufferedWriter writer)
           
static void main(java.lang.String[] args)
           
 java.util.List<java.lang.Integer> parseHeaderFasta(java.lang.String s)
           
 
Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

PrintData

public PrintData(java.lang.String directory)
Method Detail

main

public static void main(java.lang.String[] args)

extractDataEnsembl

public boolean extractDataEnsembl(java.io.File file,
                                  java.io.BufferedWriter writer)

extractDataFasta

public boolean extractDataFasta(java.io.File file,
                                java.io.BufferedWriter writer)

checkMul3

public int checkMul3(java.util.List<java.lang.Integer> list)

checkStop

public java.lang.String checkStop(java.lang.String sequence,
                                  int last)

checkATG

public java.lang.String checkATG(java.lang.String sequence,
                                 int start)

checkStopReverse

public java.lang.String checkStopReverse(java.lang.String sequence,
                                         int last)

checkCAT

public java.lang.String checkCAT(java.lang.String sequence,
                                 int start)

parseHeaderFasta

public java.util.List<java.lang.Integer> parseHeaderFasta(java.lang.String s)