Package org.broad.igv.track

Examples of org.broad.igv.track.WindowFunction

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        float[] values = new float[nPts];
        for (int i = 0; i < nPts; i++) {
            values[i] = random.nextFloat();
        }

        WindowFunction wf = WindowFunction.percentile10;
        float v = ProcessingUtils.computeStat(values, wf);
        assertEquals(wf.getValue(), 0.1, v, 1.0e-2);

    }
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                                log.error("Number format exception in track line (ylinemark): " + nextLine);
                            }
                        } else if (key.equals("ylineonoff")) {
                            trackProperties.setDrawYLine(value.equals("on"));
                        } else if (key.equals("windowingfunction")) {
                            WindowFunction wf = WindowFunction.getWindowFunction(value);
                            trackProperties.setWindowingFunction(wf);
                        } else if (key.equals("maxfeaturewindow") || key.equals("featurevisibilitywindow") ||
                                key.equals("visibilitywindow")) {
                            try {
                                int windowSize = Integer.parseInt(value);
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        List<LocusScore> scores;

        if (zoom <= this.maxPrecomputedZoom) {
            // Window function == none => no windowing, so its not clear what to do.  For now use mean
            WindowFunction wf = (windowFunction == WindowFunction.none ? WindowFunction.mean : windowFunction);

            List<TDFTile> tiles = null;
            if (querySeq.equals(Globals.CHR_ALL) && !isChrOrderValid()) {
                TDFTile wgTile = reader.getWholeGenomeTile(genome, wf);
                tiles = Arrays.asList(wgTile);
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Related Classes of org.broad.igv.track.WindowFunction

  • org.broad.igv.preprocess.ProcessingUtilsTest
  • org.broad.igv.tdf.TDFDataSource
  • org.broad.igv.util.ParsingUtils
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