util
Class BlastPDB

java.lang.Object
  extended by util.BlastPDB

public class BlastPDB
extends java.lang.Object


Constructor Summary
BlastPDB()
           
 
Method Summary
static java.lang.String blastThePDB(java.lang.String _sequence, double _eCutOff)
           
static boolean evaluateBestHit(java.lang.String bestHit)
          Check PDB result against the specified threshold
static java.lang.String findBestHit(java.lang.String blastResult)
          Gets best PDB hit
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

BlastPDB

public BlastPDB()
Method Detail

blastThePDB

public static java.lang.String blastThePDB(java.lang.String _sequence,
                                           double _eCutOff)

findBestHit

public static java.lang.String findBestHit(java.lang.String blastResult)
Gets best PDB hit

Parameters:
blastResult - Output from blast
Returns:
best PDB hit on format ID|CHAIN|EVALUE|IDENTITIES

evaluateBestHit

public static boolean evaluateBestHit(java.lang.String bestHit)
Check PDB result against the specified threshold

Parameters:
bestHit - PDB hit on format ID|CHAIN|EVALUE|IDENTITIES
Returns:
true if the selected result passes eValue and identities thresholds