Exemplo n.º 1
0
  public LayerMapView(DataSetLayerOverview dataSetLayerOverview) {
    String[] chromosomes =
        new String[] {
          "1", "2", "3", "4", "5", "6", "7", "8", "9", "10", "11", "12", "13", "14", "15", "16",
          "17", "18", "19", "X"
        };
    List<String> validNames = Arrays.asList(new String[] {"positionPeakBP", "geneStartBP"});
    selectedPositionColumnX = validNames.get(0);
    selectedPositionColumnY = validNames.get(1);

    expressionQtlTrackX =
        new ExpressionQtlTrack("eQTL", dataSetLayerOverview.layerKey, selectedPositionColumnX);
    expressionQtlTrackY =
        new ExpressionQtlTrack("eQTL", dataSetLayerOverview.layerKey, selectedPositionColumnY);

    final GenomeDisplayTrack<?>[] tracksX =
        new GenomeDisplayTrack[] {
          new BasepairPositionTrack(),
          new ChromosomeBandTrack(),
          new ContigTrack(),
          new TranscriptTrack(),
          expressionQtlTrackX
        };
    this.scrollerX = new GenomeDisplayScroller(tracksX, chromosomes[0], false, "scrollX");

    final GenomeDisplayTrack<?>[] tracksY =
        new GenomeDisplayTrack[] {
          new BasepairPositionTrack(),
          new ChromosomeBandTrack(),
          new ContigTrack(),
          new TranscriptTrack(),
          expressionQtlTrackY
        };
    this.scrollerY = new GenomeDisplayScroller(tracksY, chromosomes[0], true, "scrollY");

    contents = new GenomeDisplayScroller2D(dataSetLayerOverview, "scroll2d");
    contents.selectedPositionColumnX = selectedPositionColumnX;
    contents.selectedPositionColumnY = selectedPositionColumnY;

    initWidget(uiBinder.createAndBindUi(this));

    for (String string : chromosomes) {
      if (string.equals("X")) chromosome.addItem("X Chromosome", string);
      else chromosome.addItem("Chromosome " + string, string);
    }

    for (String columName : dataSetLayerOverview.columns) {
      if (validNames.contains(columName)) {
        positionColumnX.addItem(columName);
        positionColumnY.addItem(columName);
      }
    }
    positionColumnX.setSelectedIndex(0);
    positionColumnY.setSelectedIndex(1);
  }
Exemplo n.º 2
0
 @UiHandler("positionColumnY")
 public void onChangePositionColumnY(ChangeEvent event) {
   selectedPositionColumnY = positionColumnX.getValue(positionColumnY.getSelectedIndex());
   contents.selectedPositionColumnY = selectedPositionColumnY;
   expressionQtlTrackY.setPositionColumn(selectedPositionColumnY);
   // force refresh
   onChangeChromosome(null);
 }
Exemplo n.º 3
0
 @UiHandler("scrollerY")
 public void onScrollY(ValueChangeEvent<GenomeRange> event) {
   contents.rangeY.pixelLength = contents.getElement().getClientHeight();
   contents.rangeY.update(event.getValue());
 }
Exemplo n.º 4
0
 @UiHandler("scrollerX")
 public void onScrollX(ValueChangeEvent<GenomeRange> event) {
   contents.rangeX.pixelLength = contents.getElement().getClientWidth();
   contents.rangeX.update(event.getValue());
 }