| AMOS::AlignmentException_t | An exception for alignment failures |
| AMOS::AllocException_t | An exception for alloc failures, better than std::bad_alloc |
| AMOS::ArgumentException_t | An exception for invalid arguments |
| AMOS::Bank_t | An AMOS data bank for efficiently storing Bankable data types |
| AMOS::Contig_t | A tiling of assembled sequence reads |
| AMOS::ContigEdge_t | Reliable linking information between two contigs |
| AMOS::ContigLink_t | Linking information between two contigs |
| AMOS::Distribution_t | A set of statistics that define a distribution |
| AMOS::Example_t | Minimal set of IBankable members |
| AMOS::Exception_t | The base AMOS excpetion class |
| AMOS::Fragment_t | Single piece of DNA |
| AMOS::IBankable_t | Interface for classes that can be stored in an AMOS Bank |
| AMOS::IDMap_t | A one-to-one mapping of IDs |
| AMOS::IMessagable_t | Interface for classes that can interpret messages |
| AMOS::IOException_t | An exception for IO errors |
| AMOS::Kmer_t | String of K bases present in the assembly |
| AMOS::Library_t | A collection of cloned, size-controlled DNA molecules |
| AMOS::Matepair_t | Matepair information for two reads |
| AMOS::Message_t | A generic AMOS message object for reading and writing data |
| AMOS::Overlap_t | An overlap relation between to sequencing reads |
| AMOS::Range_t | A gapped coordinate range |
| AMOS::Read_t | A DNA sequencing read |
| AMOS::Scaffold_t | A ordered, oriented and positioned list of contigs |
| AMOS::Sequence_t | Sequence bases with quality scores |
| AMOS::Tile_t | A singe sequence's location and orientation in a larger sequence |
| AMOS::Universal_t | A universal base class that can be used by Banks or Messages |
1.3-rc2