attributeSet.add(new EntityAttribute("observedClusterDensity", value));
attributeSet.add(new EntityAttribute("SAMToolsFlagstat.totalPassedReads", value)); attributeSet.add(new EntityAttribute("SAMToolsFlagstat.aligned", value)); attributeSet.add(new EntityAttribute("SAMToolsFlagstat.paired", value));
attributeSet.add(new EntityAttribute("yield", value)); attributeSet.add(new EntityAttribute("passedFiltering", value)); attributeSet.add(new EntityAttribute("numberOfReads", value)); attributeSet.add(new EntityAttribute("rawClustersPerLane", value)); attributeSet.add(new EntityAttribute("perfectIndexReads", value)); attributeSet.add(new EntityAttribute("oneMismatchReadsIndex", value)); attributeSet.add(new EntityAttribute("q30YieldPassingFiltering", value)); attributeSet.add(new EntityAttribute("meanQualityScorePassingFiltering", value));
.add(new EntityAttribute("GATKDepthOfCoverage.totalCoverage", split[1])); attributeSet.add(new EntityAttribute("GATKDepthOfCoverage.mean", split[2])); attributeSet.add(new EntityAttribute("sample_interval_summary.totalCoverageCount", totalCoverageCount + "")); attributeSet.add(new EntityAttribute("numberOnTarget", (double) totalCoverageCount / (totalPassedReads * 100) + ""));
attributeSet.add(new EntityAttribute("PicardMarkDuplicates.readPairDuplicates", readPairDuplicates)); attributeSet.add(new EntityAttribute("PicardMarkDuplicates.percentDuplication", percentDuplication));
attributeSet.add(new EntityAttribute("best_match", line.split("\\t")[1]));
attributeSet.add(new EntityAttribute(totalCoverageKey, split[1])); attributeSet.add(new EntityAttribute(meanCoverageKey, split[2])); attributeSet.add(new EntityAttribute(totalCoverageCountKey, totalCoverageCount + "")); attributeSet.add(new EntityAttribute(numberOnTargetKey, (double) totalCoverageCount / (totalPassedReads * 100) + ""));
EntityAttribute attribute = new EntityAttribute(); attribute.setName(attributeName); attribute.setValue(attributeValue);
EntityAttribute attribute = new EntityAttribute(); attribute.setName(attributeName); attribute.setValue(attributeValue);
EntityAttribute attribute = new EntityAttribute(); attribute.setName(attributeName); attribute.setValue(attributeValue);
EntityAttribute attribute = new EntityAttribute(); attribute.setName(attributeName); attribute.setValue(attributeValue);