drawLabels(Graphics) |  | 0% |  | 0% | 13 | 13 | 78 | 78 | 1 | 1 |
splitMatches(boolean, int, int, int) |  | 0% |  | 0% | 23 | 23 | 60 | 60 | 1 | 1 |
getDifferenceCoords(boolean) |  | 0% |  | 0% | 22 | 22 | 61 | 61 | 1 | 1 |
drawAlignments(Graphics) |  | 0% |  | 0% | 18 | 18 | 60 | 60 | 1 | 1 |
popupMenu(MouseEvent) |  | 0% |  | 0% | 2 | 2 | 46 | 46 | 1 | 1 |
flippingContig(boolean, int, int) |  | 0% |  | 0% | 20 | 20 | 29 | 29 | 1 | 1 |
reorder(boolean, int, int, int) |  | 0% |  | 0% | 18 | 18 | 26 | 26 | 1 | 1 |
AlignmentViewer(FeatureDisplay, FeatureDisplay, ComparisonData) |  | 0% | | n/a | 1 | 1 | 46 | 46 | 1 | 1 |
getAlignMatchFromPosition(Point) |  | 0% |  | 0% | 8 | 8 | 31 | 31 | 1 | 1 |
getMatchCoords(int, AlignMatch, int, int, boolean, boolean, float, float, int, int, boolean, boolean, boolean) |  | 0% |  | 0% | 19 | 19 | 38 | 38 | 1 | 1 |
selectFromSubjectRanges(RangeVector) |  | 0% |  | 0% | 14 | 14 | 36 | 36 | 1 | 1 |
selectFromQueryRanges(RangeVector) |  | 0% |  | 0% | 14 | 14 | 36 | 36 | 1 | 1 |
selectionChanged() |  | 0% |  | 0% | 9 | 9 | 23 | 23 | 1 | 1 |
paintComponentForPrint(Graphics, boolean) |  | 0% |  | 0% | 7 | 7 | 20 | 20 | 1 | 1 |
paintComponent(Graphics) |  | 0% |  | 0% | 5 | 5 | 17 | 17 | 1 | 1 |
removeMatches(Vector) |  | 0% |  | 0% | 4 | 4 | 14 | 14 | 1 | 1 |
isVisible(AlignMatch) |  | 0% |  | 0% | 10 | 10 | 14 | 14 | 1 | 1 |
createColours(String, Color) |  | 0% |  | 0% | 2 | 2 | 9 | 9 | 1 | 1 |
makeColours() |  | 0% |  | 0% | 2 | 2 | 7 | 7 | 1 | 1 |
toggleSelection(Point) |  | 0% |  | 0% | 5 | 5 | 13 | 13 | 1 | 1 |
alignAt(AlignMatch) |  | 0% |  | 0% | 2 | 2 | 7 | 7 | 1 | 1 |
getScreenPosition(float, int, int) |  | 0% |  | 0% | 3 | 3 | 6 | 6 | 1 | 1 |
handleCanvasMousePress(MouseEvent) |  | 0% |  | 0% | 3 | 3 | 7 | 7 | 1 | 1 |
subjectIsRevComp() |  | 0% |  | 0% | 3 | 3 | 5 | 5 | 1 | 1 |
queryIsRevComp() |  | 0% |  | 0% | 3 | 3 | 5 | 5 | 1 | 1 |
handleCanvasSingleClick(MouseEvent) |  | 0% |  | 0% | 3 | 3 | 6 | 6 | 1 | 1 |
modifiersForLockToggle(MouseEvent) |  | 0% |  | 0% | 3 | 3 | 2 | 2 | 1 | 1 |
setSelection(AlignMatch) |  | 0% | | n/a | 1 | 1 | 4 | 4 | 1 | 1 |
isMenuTrigger(MouseEvent) |  | 0% |  | 0% | 3 | 3 | 4 | 4 | 1 | 1 |
getRealSubjectSequenceStart(AlignMatch, int, boolean) |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
getRealSubjectSequenceEnd(AlignMatch, int, boolean) |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
getRealQuerySequenceStart(AlignMatch, int, boolean) |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
getRealQuerySequenceEnd(AlignMatch, int, boolean) |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
toggleDisplayLock() |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
handleCanvasDoubleClick(MouseEvent) |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
setSubjectSequencePosition(DisplayAdjustmentEvent) |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
setQuerySequencePosition(DisplayAdjustmentEvent) |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
removeAlignmentSelectionChangeListener(AlignmentSelectionChangeListener) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
removeAlignmentListener(AlignmentListener) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
invalidate() |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
lockDisplays() |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
unlockDisplays() |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
addAlignmentSelectionChangeListener(AlignmentSelectionChangeListener) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
addAlignmentListener(AlignmentListener) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
getSubjectForwardStrand() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getQueryForwardStrand() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
disableSelection() | | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
enableSelection() | | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
sequenceChanged(SequenceChangeEvent) | | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
offerToFlip() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getSubjectEntryGroup() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getQueryEntryGroup() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getSubjectDisplay() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getQueryDisplay() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getOrigSubjectForwardStrand() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getOrigQueryForwardStrand() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
displaysAreLocked() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getComparisonData() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
static {...} | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |