compbio.pipeline._jpred
Class Jpred4

java.lang.Object
  compbio.pipeline._jpred.Jpred4

public class Jpred4
extends Object

jpred --sequence OR --alignment [--db ] [--pred-nohits] [--logLevel=(ERROR|INFO|DEBUG)] [--help] jpred4 --sequence The path to the sequence (in FASTA format) you want to predict OR [--alignment ] The alignment which to use for prediction [--profile=] [--db ] Database to use for PSI-BLAST querying. Default: uniref90 ( /homes/www-jpred/databases/uniref90.filt) Please note that database must be psi-blast indexed [--pred-nohits] Toggle allowing Jpred to make predictions even when there are no PSI-BLAST hits. [--logLevel=(ERROR|INFO|DEBUG)] one of ERROR, INFO, DEBUG [--help]

Author:

pvtroshin

Constructor Summary

Jpred4()

Method Summary

void	runPsiBlast()

Methods inherited from class java.lang.Object

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

Constructor Detail

Jpred4

public Jpred4()

Method Detail

runPsiBlast

public void runPsiBlast()