charite.christo.strap.extensions
Class TransmembraneHelix_TMAP_MULTI

java.lang.Object
  charite.christo.strap.extensions.TransmembraneHelix_TMAP_MULTI

All Implemented Interfaces:

HasControlPanel, NeedsInternet, PredictionFromAminoacidSequence, TransmembraneHelix_Predictor

public class TransmembraneHelix_TMAP_MULTI
extends java.lang.Object
implements TransmembraneHelix_Predictor, HasControlPanel, NeedsInternet

HELP Server: HOME_PAGE:TransmembraneHelix_TMAP_MULTI
It takes a multiple sequence alignment as input and predicts the transmembrane helices from the alignment.
Authors:By B Persson and P Argos
Publication: PUBMED:9246628

Constructor Summary

TransmembraneHelix_TMAP_MULTI()

Method Summary

void	compute() Computation is started and may take long time.
javax.swing.JComponent	getControlPanel(boolean real)
char[][]	getPrediction() Returns a character for each sequence position.
BA	getResults(java.lang.String[] sequences)
void	setGappedSequences(java.lang.String[] ss) set the sequences.

Methods inherited from class java.lang.Object

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

Constructor Detail

TransmembraneHelix_TMAP_MULTI

public TransmembraneHelix_TMAP_MULTI()

Method Detail

setGappedSequences

public void setGappedSequences(java.lang.String[] ss)

Description copied from interface: PredictionFromAminoacidSequence

set the sequences. Since some prediction methods take an alignment as input we pass several sequences that might be aligned. For example a secondary structure predictore might compute refine the prediction using multiple sequences

Specified by:

setGappedSequences in interface PredictionFromAminoacidSequence

getPrediction

public char[][] getPrediction()

Description copied from interface: PredictionFromAminoacidSequence

Returns a character for each sequence position. For example 'H' for Helix..

Specified by:

getPrediction in interface PredictionFromAminoacidSequence

getControlPanel

public javax.swing.JComponent getControlPanel(boolean real)

Specified by:

getControlPanel in interface HasControlPanel

compute

public void compute()

Description copied from interface: PredictionFromAminoacidSequence

Computation is started and may take long time.

Specified by:

compute in interface PredictionFromAminoacidSequence

getResults

public BA getResults(java.lang.String[] sequences)