compbio.pipeline._jpred
Class Jpred4
java.lang.Object
compbio.pipeline._jpred.Jpred4
public class Jpred4
- extends java.lang.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
Methods inherited from class java.lang.Object |
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Jpred4
public Jpred4()
runPsiBlast
public void runPsiBlast()