Index
| AbundanceMap | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| AccessionMap | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| AccSet | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| appendHeader | Utility |
| Args | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| Assembly | Types |
| BamRow | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| bamToFasta | Utility, Merge |
| blastBamToFasta | Blast |
| BlastSet | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| Command | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| decodeSAMFlag | Utility |
| DuplicationRow | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| fastaToMap | Utility |
| Fill | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| filterBlastBamRows | Blast |
| findWithError | Utility |
| FrequencyMap | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| getAbundanceMap | Parse |
| getAccSet | Parse |
| getFrequencyMap | Parse |
| getMatchMap | Utility |
| Headers | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| MatchMap | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| mergeAbundance | Merge |
| mergeMates | Merge |
| NonAssembly | Types |
| nub' | Utility |
| parseBAM | Parse |
| parseDuplications | Parse |
| Position | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| PositionMap | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| Preprocess | Types |
| Query | Types |
| QueryFile | Types |
| QueryShell | Types |
| Sequence | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| Subject | |
| 1 (Type/Class) | Types |
| 2 (Data Constructor) | Types |
| TrinityArgs | Types |
| TrinityBase | Types |
| TrinityCustom | Types |
| TrinityGenome | Types |
| unAbundanceMap | Types |
| unAccessionMap | Types |
| unAccSet | Types |
| unArgs | Types |
| unBamRow | Types |
| unBlastSet | Types |
| unCommand | Types |
| unDuplicationRow | Types |
| unFill | Types |
| unFrequencyMap | Types |
| unHeaders | Types |
| unMatchMap | Types |
| unPosition | Types |
| unPositionMap | Types |
| unSequence | Types |
| unSubject | Types |