Examples of formatLong()

Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        acgtContent.addRow("Number/percentage of A's", sdf.formatLong(getaNumber()) +
                " / " + sdf.formatPercentage(getaPercent()));
    acgtContent.addRow("Number/percentage of C's",sdf.formatLong(getcNumber()) +
                " / " + sdf.formatPercentage(getcPercent()));
    acgtContent.addRow("Number/percentage of T's", sdf.formatLong(gettNumber()) +
                " / " + sdf.formatPercentage(gettPercent()));
    acgtContent.addRow("Number/percentage of G's",sdf.formatLong(getgNumber()) +
                " / " + sdf.formatPercentage(getgPercent()));
    acgtContent.addRow("Number/percentage of N's",sdf.formatLong(getnNumber()) +
                " / " + sdf.formatPercentage(getnPercent()));
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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                " / " + sdf.formatPercentage(getaPercent()));
    acgtContent.addRow("Number/percentage of C's",sdf.formatLong(getcNumber()) +
                " / " + sdf.formatPercentage(getcPercent()));
    acgtContent.addRow("Number/percentage of T's", sdf.formatLong(gettNumber()) +
                " / " + sdf.formatPercentage(gettPercent()));
    acgtContent.addRow("Number/percentage of G's",sdf.formatLong(getgNumber()) +
                " / " + sdf.formatPercentage(getgPercent()));
    acgtContent.addRow("Number/percentage of N's",sdf.formatLong(getnNumber()) +
                " / " + sdf.formatPercentage(getnPercent()));
    acgtContent.addRow("GC Percentage", sdf.formatPercentage(getGcPercent()));
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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                " / " + sdf.formatPercentage(getcPercent()));
    acgtContent.addRow("Number/percentage of T's", sdf.formatLong(gettNumber()) +
                " / " + sdf.formatPercentage(gettPercent()));
    acgtContent.addRow("Number/percentage of G's",sdf.formatLong(getgNumber()) +
                " / " + sdf.formatPercentage(getgPercent()));
    acgtContent.addRow("Number/percentage of N's",sdf.formatLong(getnNumber()) +
                " / " + sdf.formatPercentage(getnPercent()));
    acgtContent.addRow("GC Percentage", sdf.formatPercentage(getGcPercent()));

        summaryStatsKeeper.addSection(acgtContent);
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        StringUtilsSwing sdf = new StringUtilsSwing();
        TranscriptDataHandler th = computeCountsTask.getTranscriptDataHandler();

        StatsKeeper.Section readsAlignment = new StatsKeeper.Section("Reads alignment");

        readsAlignment.addRow("Aligned to genes:", sdf.formatLong(computeCountsTask.getTotalReadCounts()));
        readsAlignment.addRow("No feature assigned:", sdf.formatLong(computeCountsTask.getNoFeatureNumber()));
        readsAlignment.addRow("Non-unique alignment:", sdf.formatLong(computeCountsTask.getAlignmentNotUniqueNumber()));
        readsAlignment.addRow("Ambiguous alignment:", sdf.formatLong(computeCountsTask.getAmbiguousNumber()));
        readsAlignment.addRow("Not aligned:", sdf.formatLong(computeCountsTask.getNotAlignedNumber()));
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        TranscriptDataHandler th = computeCountsTask.getTranscriptDataHandler();

        StatsKeeper.Section readsAlignment = new StatsKeeper.Section("Reads alignment");

        readsAlignment.addRow("Aligned to genes:", sdf.formatLong(computeCountsTask.getTotalReadCounts()));
        readsAlignment.addRow("No feature assigned:", sdf.formatLong(computeCountsTask.getNoFeatureNumber()));
        readsAlignment.addRow("Non-unique alignment:", sdf.formatLong(computeCountsTask.getAlignmentNotUniqueNumber()));
        readsAlignment.addRow("Ambiguous alignment:", sdf.formatLong(computeCountsTask.getAmbiguousNumber()));
        readsAlignment.addRow("Not aligned:", sdf.formatLong(computeCountsTask.getNotAlignedNumber()));

        summaryKeeper.addSection(readsAlignment);
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        StatsKeeper.Section readsAlignment = new StatsKeeper.Section("Reads alignment");

        readsAlignment.addRow("Aligned to genes:", sdf.formatLong(computeCountsTask.getTotalReadCounts()));
        readsAlignment.addRow("No feature assigned:", sdf.formatLong(computeCountsTask.getNoFeatureNumber()));
        readsAlignment.addRow("Non-unique alignment:", sdf.formatLong(computeCountsTask.getAlignmentNotUniqueNumber()));
        readsAlignment.addRow("Ambiguous alignment:", sdf.formatLong(computeCountsTask.getAmbiguousNumber()));
        readsAlignment.addRow("Not aligned:", sdf.formatLong(computeCountsTask.getNotAlignedNumber()));

        summaryKeeper.addSection(readsAlignment);
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        StatsKeeper.Section readsAlignment = new StatsKeeper.Section("Reads alignment");

        readsAlignment.addRow("Aligned to genes:", sdf.formatLong(computeCountsTask.getTotalReadCounts()));
        readsAlignment.addRow("No feature assigned:", sdf.formatLong(computeCountsTask.getNoFeatureNumber()));
        readsAlignment.addRow("Non-unique alignment:", sdf.formatLong(computeCountsTask.getAlignmentNotUniqueNumber()));
        readsAlignment.addRow("Ambiguous alignment:", sdf.formatLong(computeCountsTask.getAmbiguousNumber()));
        readsAlignment.addRow("Not aligned:", sdf.formatLong(computeCountsTask.getNotAlignedNumber()));

        summaryKeeper.addSection(readsAlignment);

        StatsKeeper.Section readsOrigin = new StatsKeeper.Section("Reads genomic origin");
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        readsAlignment.addRow("Aligned to genes:", sdf.formatLong(computeCountsTask.getTotalReadCounts()));
        readsAlignment.addRow("No feature assigned:", sdf.formatLong(computeCountsTask.getNoFeatureNumber()));
        readsAlignment.addRow("Non-unique alignment:", sdf.formatLong(computeCountsTask.getAlignmentNotUniqueNumber()));
        readsAlignment.addRow("Ambiguous alignment:", sdf.formatLong(computeCountsTask.getAmbiguousNumber()));
        readsAlignment.addRow("Not aligned:", sdf.formatLong(computeCountsTask.getNotAlignedNumber()));

        summaryKeeper.addSection(readsAlignment);

        StatsKeeper.Section readsOrigin = new StatsKeeper.Section("Reads genomic origin");
        long totalReadCount = computeCountsTask.getTotalReadCounts() + computeCountsTask.getNoFeatureNumber();
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        StatsKeeper.Section readsOrigin = new StatsKeeper.Section("Reads genomic origin");
        long totalReadCount = computeCountsTask.getTotalReadCounts() + computeCountsTask.getNoFeatureNumber();
        long exonicReadCount = totalReadCount - computeCountsTask.getNoFeatureNumber();
        long intronicReadCount = th.getNumIntronicReads();
        long intergenicReadCount = th.getNumIntergenicReads();
        readsOrigin.addRow("Exonic: ", sdf.formatLong(exonicReadCount) + " / " +
                sdf.formatPercentage( (100.*exonicReadCount) /  totalReadCount ));
        readsOrigin.addRow("Intronic: ", sdf.formatLong(intronicReadCount) + " / " +
                sdf.formatPercentage( (100.*intronicReadCount) /  totalReadCount ));
        readsOrigin.addRow("Intergenic: ", sdf.formatLong(intergenicReadCount) + " / " +
                sdf.formatPercentage( (100.*intergenicReadCount) /  totalReadCount ));
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatLong()

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        long exonicReadCount = totalReadCount - computeCountsTask.getNoFeatureNumber();
        long intronicReadCount = th.getNumIntronicReads();
        long intergenicReadCount = th.getNumIntergenicReads();
        readsOrigin.addRow("Exonic: ", sdf.formatLong(exonicReadCount) + " / " +
                sdf.formatPercentage( (100.*exonicReadCount) /  totalReadCount ));
        readsOrigin.addRow("Intronic: ", sdf.formatLong(intronicReadCount) + " / " +
                sdf.formatPercentage( (100.*intronicReadCount) /  totalReadCount ));
        readsOrigin.addRow("Intergenic: ", sdf.formatLong(intergenicReadCount) + " / " +
                sdf.formatPercentage( (100.*intergenicReadCount) /  totalReadCount ));
        summaryKeeper.addSection(readsOrigin);

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