Examples of formatDecimal()

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

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             }

        globals.addRow("Read min/max/mean length",
                sdf.formatLong(readMinSize) + " / "
                        + sdf.formatLong(readMaxSize) + " / "
                        + sdf.formatDecimal(readMeanSize));

        if (numSelectedRegions == 0) {

            globals.addRow("Clipped reads",
                        sdf.formatInteger(numClippedReads) + " / " +
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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        summaryStatsKeeper.addSection(acgtContent);



    StatsKeeper.Section coverageSection = new StatsKeeper.Section("Coverage" + postfix);
    coverageSection.addRow("Mean", sdf.formatDecimal(meanCoverage));
    coverageSection.addRow("Standard Deviation",sdf.formatDecimal(stdCoverage) );
    summaryStatsKeeper.addSection(coverageSection);

    StatsKeeper.Section mappingQualitySection = new StatsKeeper.Section("Mapping Quality" + postfix);
    mappingQualitySection.addRow("Mean Mapping Quality", sdf.formatDecimal(meanMappingQuality));
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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    StatsKeeper.Section coverageSection = new StatsKeeper.Section("Coverage" + postfix);
    coverageSection.addRow("Mean", sdf.formatDecimal(meanCoverage));
    coverageSection.addRow("Standard Deviation",sdf.formatDecimal(stdCoverage) );
    summaryStatsKeeper.addSection(coverageSection);

    StatsKeeper.Section mappingQualitySection = new StatsKeeper.Section("Mapping Quality" + postfix);
    mappingQualitySection.addRow("Mean Mapping Quality", sdf.formatDecimal(meanMappingQuality));
    summaryStatsKeeper.addSection(mappingQualitySection);
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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    coverageSection.addRow("Mean", sdf.formatDecimal(meanCoverage));
    coverageSection.addRow("Standard Deviation",sdf.formatDecimal(stdCoverage) );
    summaryStatsKeeper.addSection(coverageSection);

    StatsKeeper.Section mappingQualitySection = new StatsKeeper.Section("Mapping Quality" + postfix);
    mappingQualitySection.addRow("Mean Mapping Quality", sdf.formatDecimal(meanMappingQuality));
    summaryStatsKeeper.addSection(mappingQualitySection);

        if (meanInsertSize != 0)
        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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    summaryStatsKeeper.addSection(mappingQualitySection);

        if (meanInsertSize != 0)
        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
            insertSizeSection.addRow("Mean", sdf.formatDecimal(meanInsertSize));
            insertSizeSection.addRow("Standard Deviation", sdf.formatDecimal(stdInsertSize));
            insertSizeSection.addRow("P25/Median/P75", sdf.formatDecimal(p25InsertSize) + " / " +
                    sdf.formatDecimal(medianInsertSize) + " / " + sdf.formatDecimal(p75InsertSize));
            summaryStatsKeeper.addSection(insertSizeSection);
        }
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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        if (meanInsertSize != 0)
        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
            insertSizeSection.addRow("Mean", sdf.formatDecimal(meanInsertSize));
            insertSizeSection.addRow("Standard Deviation", sdf.formatDecimal(stdInsertSize));
            insertSizeSection.addRow("P25/Median/P75", sdf.formatDecimal(p25InsertSize) + " / " +
                    sdf.formatDecimal(medianInsertSize) + " / " + sdf.formatDecimal(p75InsertSize));
            summaryStatsKeeper.addSection(insertSizeSection);
        }
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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        if (meanInsertSize != 0)
        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
            insertSizeSection.addRow("Mean", sdf.formatDecimal(meanInsertSize));
            insertSizeSection.addRow("Standard Deviation", sdf.formatDecimal(stdInsertSize));
            insertSizeSection.addRow("P25/Median/P75", sdf.formatDecimal(p25InsertSize) + " / " +
                    sdf.formatDecimal(medianInsertSize) + " / " + sdf.formatDecimal(p75InsertSize));
            summaryStatsKeeper.addSection(insertSizeSection);
        }

        int numIndels = numInsertions + numDeletions;
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
            insertSizeSection.addRow("Mean", sdf.formatDecimal(meanInsertSize));
            insertSizeSection.addRow("Standard Deviation", sdf.formatDecimal(stdInsertSize));
            insertSizeSection.addRow("P25/Median/P75", sdf.formatDecimal(p25InsertSize) + " / " +
                    sdf.formatDecimal(medianInsertSize) + " / " + sdf.formatDecimal(p75InsertSize));
            summaryStatsKeeper.addSection(insertSizeSection);
        }

        int numIndels = numInsertions + numDeletions;
        if ( numIndels > 0 || numMismatches > 0 || alignmentErrorRate > 0) {
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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        {
            StatsKeeper.Section insertSizeSection = new StatsKeeper.Section("Insert size" + postfix);
            insertSizeSection.addRow("Mean", sdf.formatDecimal(meanInsertSize));
            insertSizeSection.addRow("Standard Deviation", sdf.formatDecimal(stdInsertSize));
            insertSizeSection.addRow("P25/Median/P75", sdf.formatDecimal(p25InsertSize) + " / " +
                    sdf.formatDecimal(medianInsertSize) + " / " + sdf.formatDecimal(p75InsertSize));
            summaryStatsKeeper.addSection(insertSizeSection);
        }

        int numIndels = numInsertions + numDeletions;
        if ( numIndels > 0 || numMismatches > 0 || alignmentErrorRate > 0) {
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Examples of org.bioinfo.ngs.qc.qualimap.gui.utils.StringUtilsSwing.formatDecimal()

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            StatsKeeper.Section indelsSection = new StatsKeeper.Section("Mismatches and indels" + postfix);
            if (alignmentErrorRate > 0) {
                indelsSection.addRow("General error rate", sdf.formatPercentage(alignmentErrorRate * 100.0));
            }
            if (numMismatches > 0) {
                indelsSection.addRow("Mismatches",sdf.formatDecimal(numMismatches));
            }
            //indelsSection.addRow("Total reads with indels", sdf.formatInteger(numIndels));
            if (numIndels > 0) {
                indelsSection.addRow("Insertions",sdf.formatDecimal(numInsertions) );
                indelsSection.addRow("Deletions",sdf.formatDecimal(numDeletions) );
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