Beginning a big refactor
Rough start to test data and unit testing for AgnTranscriptClique class
Expanded unit tests for AgnTranscriptClique class, removed memory leaks
Implemented AgnCliquePair class; it compiles, but is untested
Added unit tests for AgnCliquePair class
Extended unit test
Skeleton implementation of AgnLocus class; it compiles, but is not yet complete or tested
Added clique reference counting for clique pairs
Nearly complete implementation of AgnLocus class; compiles, but is untested
Complete implementation (as far as I can tell) of AgnLocus class; compiles, but is still untested
Single simplest-case unit test implemented for AgnLocus; passes, but still has memory leaks and more tests are needed
Corrected some memory leaks in AgnLocus class
Merge branch 'master' into refactor
Merge branch 'refactor' of github.com:standage/AEGeAn into refactor
Improving unit tests
More robust testing for comparisons
Fixed typedef for docs
Small improvements to docs
AgnFilterStream class
Skeleton implementation of AgnInferCDSVisitor class