combineGeneFeatures(FeatureVector) |  | 0% |  | 0% | 27 | 27 | 70 | 70 | 1 | 1 |
mergeFeatures(List, List, String) |  | 0% |  | 0% | 12 | 12 | 66 | 66 | 1 | 1 |
mergeGtfFeatures(FeatureVector, String) |  | 0% |  | 0% | 8 | 8 | 38 | 38 | 1 | 1 |
IndexedGFFDocumentEntry(Document) |  | 0% |  | 0% | 6 | 6 | 38 | 38 | 1 | 1 |
indexOf(Feature) |  | 0% |  | 0% | 15 | 15 | 35 | 35 | 1 | 1 |
getFeaturesInRange(IndexedGFFDocumentEntry.IndexContig, Range, FeatureVector) |  | 0% |  | 0% | 8 | 8 | 30 | 30 | 1 | 1 |
getFeatureAtIndex(int) |  | 0% |  | 0% | 10 | 10 | 32 | 32 | 1 | 1 |
getContigsInRange(Range) |  | 0% |  | 0% | 13 | 13 | 17 | 17 | 1 | 1 |
combineChadoExons(ChadoCanonicalGene, FeatureVector) |  | 0% |  | 0% | 7 | 7 | 25 | 25 | 1 | 1 |
contains(Feature, String, String, String, String) |  | 0% |  | 0% | 18 | 18 | 21 | 21 | 1 | 1 |
mergeQualifiers(QualifierVector, boolean) |  | 0% |  | 0% | 10 | 10 | 23 | 23 | 1 | 1 |
checkOffset() |  | 0% |  | 0% | 7 | 7 | 15 | 15 | 1 | 1 |
iterate(IndexedGFFDocumentEntry.IndexContig, int, int, TabixReader.Iterator, FeatureVector) |  | 0% |  | 0% | 9 | 9 | 18 | 18 | 1 | 1 |
initContig() |  | 0% |  | 0% | 7 | 7 | 17 | 17 | 1 | 1 |
getGffInArtemisCoordinates(String, StringVector, IndexedGFFDocumentEntry.IndexContig) |  | 0% |  | 0% | 5 | 5 | 15 | 15 | 1 | 1 |
getFeatureCount() |  | 0% |  | 0% | 6 | 6 | 19 | 19 | 1 | 1 |
getFeaturesInRange(Range) |  | 0% |  | 0% | 5 | 5 | 19 | 19 | 1 | 1 |
truncate(Range, Entry) |  | 0% |  | 0% | 2 | 2 | 12 | 12 | 1 | 1 |
getListOfContigs() |  | 0% |  | 0% | 4 | 4 | 7 | 7 | 1 | 1 |
contains(Feature, FeatureVector) |  | 0% |  | 0% | 3 | 3 | 8 | 8 | 1 | 1 |
isTranscript(Key) |  | 0% |  | 0% | 4 | 4 | 6 | 6 | 1 | 1 |
getStartInArtemisCoords(StringVector, IndexedGFFDocumentEntry.IndexContig) |  | 0% |  | 0% | 2 | 2 | 4 | 4 | 1 | 1 |
getEndInArtemisCoords(StringVector, IndexedGFFDocumentEntry.IndexContig) |  | 0% |  | 0% | 2 | 2 | 4 | 4 | 1 | 1 |
getCoordInContigCoords(int, IndexedGFFDocumentEntry.IndexContig) |  | 0% |  | 0% | 3 | 3 | 5 | 5 | 1 | 1 |
updateReference(String, boolean) |  | 0% | | n/a | 1 | 1 | 5 | 5 | 1 | 1 |
save(Document) |  | 0% | | n/a | 1 | 1 | 7 | 7 | 1 | 1 |
contains(Feature) |  | 0% |  | 0% | 2 | 2 | 1 | 1 | 1 | 1 |
setName(String) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
features() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getAllFeatures() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
save() |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
setEntryGroup(EntryGroup) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
getName() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getDocument() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getEntryInformation() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
hasUnsavedChanges() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
isReadOnly() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getHeaderText() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
setHeaderText(String) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
createFeature(Key, Location, QualifierVector) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
add(Feature) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
forcedAdd(Feature) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
remove(Feature) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getSequence() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
getLastChangeTime() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
dispose() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
writeToStream(Writer) | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
setDirtyFlag() | | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
isIndexed(File) |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |
static {...} |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |