| BamView.java |   | 14% |   | 7% | 736 | 786 | 1,962 | 2,329 | 180 | 222 | 53 | 60 |
| MappedReads.java |  | 0% |  | 0% | 102 | 102 | 345 | 345 | 19 | 19 | 6 | 6 |
| CoveragePanel.java |   | 5% |  | 0% | 119 | 125 | 338 | 366 | 31 | 37 | 2 | 5 |
| LookSeqPanel.java |  | 0% |  | 0% | 72 | 72 | 306 | 306 | 47 | 47 | 15 | 15 |
| LineAttributes.java |   | 24% |  | 3% | 34 | 38 | 137 | 156 | 19 | 23 | 5 | 6 |
| SAMRecordList.java |  | 0% |  | 0% | 39 | 39 | 127 | 127 | 18 | 18 | 7 | 7 |
| FileSelectionDialog.java |   | 21% |   | 26% | 42 | 48 | 121 | 158 | 15 | 18 | 4 | 5 |
| GroupBamFrame.java |   | 33% |  | 0% | 36 | 41 | 112 | 163 | 16 | 21 | 2 | 7 |
| BamUtils.java |   | 61% |   | 41% | 65 | 102 | 101 | 276 | 4 | 18 | 0 | 1 |
| SAMRecordFilter.java |  | 0% |  | 0% | 25 | 25 | 109 | 109 | 12 | 12 | 5 | 5 |
| SnpPanel.java |  | 7% |  | 0% | 23 | 25 | 83 | 93 | 5 | 7 | 0 | 2 |
| ReadGroupsFrame.java |  | 0% |  | 0% | 24 | 24 | 93 | 93 | 12 | 12 | 5 | 5 |
| RunSamTools.java |  | 0% |  | 0% | 33 | 33 | 117 | 117 | 14 | 14 | 3 | 3 |
| AbstractGraphPanel.java |  | 17% |  | 0% | 30 | 35 | 80 | 97 | 15 | 20 | 1 | 5 |
| BamOSXAdapter.java |  | 0% |  | 0% | 26 | 26 | 78 | 78 | 12 | 12 | 2 | 2 |
| PrintBamView.java |  | 0% | | 0% | 10 | 10 | 71 | 71 | 6 | 6 | 2 | 2 |
| PopupMessageFrame.java |  | 18% | | 0% | 13 | 15 | 63 | 78 | 9 | 11 | 1 | 2 |
| ReadCountDialog.java |  | 26% |   | 50% | 19 | 24 | 59 | 78 | 8 | 10 | 3 | 4 |
| CRAMReferenceSequenceFile.java |  | 0% | | 0% | 11 | 11 | 35 | 35 | 9 | 9 | 1 | 1 |
| BamFrame.java | | 0% | | 0% | 11 | 11 | 25 | 25 | 7 | 7 | 1 | 1 |
| SAMRecordFlagConjunctionPredicate.java | | 0% |  | 0% | 9 | 9 | 22 | 22 | 4 | 4 | 1 | 1 |
| SAMRecordSequenceString.java | | 0% | | 0% | 8 | 8 | 16 | 16 | 6 | 6 | 1 | 1 |
| SAMRecordComparator.java | | 0% |  | 0% | 8 | 8 | 16 | 16 | 2 | 2 | 1 | 1 |
| SAMRecordPositionComparator.java | | 0% | | 0% | 4 | 4 | 12 | 12 | 2 | 2 | 1 | 1 |
| PairedReadComparator.java | | 0% | | 0% | 4 | 4 | 10 | 10 | 2 | 2 | 1 | 1 |
| SAMRecordMapQPredicate.java | | 0% | | 0% | 3 | 3 | 6 | 6 | 2 | 2 | 1 | 1 |
| BamViewRecord.java | | 0% | | n/a | 1 | 1 | 5 | 5 | 1 | 1 | 1 | 1 |
| SAMRecordFlagPredicate.java |  | 92% | | 60% | 3 | 10 | 2 | 16 | 0 | 5 | 0 | 1 |
| ReadCount.java | | 68% | | 50% | 1 | 2 | 2 | 9 | 0 | 1 | 0 | 1 |