Index
| A | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.RNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.DNA |
| 3 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 4 (Data Constructor) | Biobase.Primary.IUPAC |
| 5 (Data Constructor) | Biobase.Primary.AA |
| AA | Biobase.Primary.AA, Biobase.Primary |
| aa | Biobase.Primary.AA, Biobase.Primary |
| aaChar | Biobase.Primary.AA, Biobase.Primary |
| aaDNAmap | Biobase.Primary.Trans, Biobase.Primary |
| aaDNAseq | Biobase.Primary.Trans, Biobase.Primary |
| aaRange | Biobase.Primary.AA, Biobase.Primary |
| acgt | Biobase.Primary.Nuc.DNA, Biobase.Primary.Nuc, Biobase.Primary |
| acgu | Biobase.Primary.Nuc.RNA, Biobase.Primary.Nuc, Biobase.Primary |
| AU | Biobase.Secondary.Vienna, Biobase.Secondary |
| B | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| baseL | Biobase.Secondary.Basepair, Biobase.Secondary |
| baseP | Biobase.Secondary.Basepair, Biobase.Secondary |
| baseR | Biobase.Secondary.Basepair, Biobase.Secondary |
| BaseSelect | Biobase.Secondary.Basepair, Biobase.Secondary |
| baseT | Biobase.Secondary.Basepair, Biobase.Secondary |
| bonusCC | Biobase.Secondary.Constraint, Biobase.Secondary |
| bonusTable | Biobase.Secondary.Constraint, Biobase.Secondary |
| C | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.RNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.DNA |
| 3 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 4 (Data Constructor) | Biobase.Primary.IUPAC |
| 5 (Data Constructor) | Biobase.Primary.AA |
| CG | Biobase.Secondary.Vienna, Biobase.Secondary |
| cgnsP | Biobase.Secondary.Vienna, Biobase.Secondary |
| cguaP | Biobase.Secondary.Vienna, Biobase.Secondary |
| charAA | Biobase.Primary.AA, Biobase.Primary |
| charBaa | Biobase.Primary.AA, Biobase.Primary |
| charDEG | Biobase.Primary.IUPAC, Biobase.Primary |
| charDNA | Biobase.Primary.Nuc.DNA, Biobase.Primary.Nuc, Biobase.Primary |
| charRNA | Biobase.Primary.Nuc.RNA, Biobase.Primary.Nuc, Biobase.Primary |
| charXNA | Biobase.Primary.Nuc.XNA, Biobase.Primary.Nuc, Biobase.Primary |
| CHH | Biobase.Secondary.Basepair, Biobase.Secondary |
| CHS | Biobase.Secondary.Basepair, Biobase.Secondary |
| CHW | Biobase.Secondary.Basepair, Biobase.Secondary |
| Cis | Biobase.Secondary.Basepair, Biobase.Secondary |
| codonListEmbedded | Biobase.Primary.Trans, Biobase.Primary |
| codonTable | Biobase.Primary.Trans, Biobase.Primary |
| cofoldStructure | Biobase.Secondary.Diagrams, Biobase.Secondary |
| Complement | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| complement | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| Constraint | |
| 1 (Type/Class) | Biobase.Secondary.Constraint, Biobase.Secondary |
| 2 (Data Constructor) | Biobase.Secondary.Constraint, Biobase.Secondary |
| CSH | Biobase.Secondary.Basepair, Biobase.Secondary |
| CSS | Biobase.Secondary.Basepair, Biobase.Secondary |
| CSW | Biobase.Secondary.Basepair, Biobase.Secondary |
| CT | Biobase.Secondary.Basepair, Biobase.Secondary |
| CTisomerism | Biobase.Secondary.Basepair, Biobase.Secondary |
| CWH | Biobase.Secondary.Basepair, Biobase.Secondary |
| CWS | Biobase.Secondary.Basepair, Biobase.Secondary |
| CWW | Biobase.Secondary.Basepair, Biobase.Secondary |
| D | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| D1S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| D1Secondary | Biobase.Secondary.Diagrams, Biobase.Secondary |
| d1sTree | Biobase.Secondary.Diagrams, Biobase.Secondary |
| d2Compare | Biobase.Secondary.Diagrams, Biobase.Secondary |
| d2Grouping | Biobase.Secondary.Diagrams, Biobase.Secondary |
| D2S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| D2Secondary | Biobase.Secondary.Diagrams, Biobase.Secondary |
| d2sTree | Biobase.Secondary.Diagrams, Biobase.Secondary |
| defaultIsostericityMap | Biobase.Secondary.Isostericity, Biobase.Secondary |
| DEG | Biobase.Primary.IUPAC, Biobase.Primary |
| degChar | Biobase.Primary.IUPAC, Biobase.Primary |
| Degenerate | Biobase.Primary.IUPAC, Biobase.Primary |
| degSeq | Biobase.Primary.IUPAC, Biobase.Primary |
| detailedCSV | Biobase.Secondary.Isostericity, Biobase.Secondary |
| DNA | Biobase.Primary.Nuc.DNA, Biobase.Primary.Nuc, Biobase.Primary |
| dnaAAmap | Biobase.Primary.Trans, Biobase.Primary |
| dnaAAseq | Biobase.Primary.Trans, Biobase.Primary |
| dnaChar | Biobase.Primary.Nuc.DNA, Biobase.Primary.Nuc, Biobase.Primary |
| dnaGxna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| dnaSeq | Biobase.Primary.Nuc.DNA, Biobase.Primary.Nuc, Biobase.Primary |
| dnaTrna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| dotBracket2pairlist | Biobase.Secondary.Diagrams, Biobase.Secondary |
| E | Biobase.Primary.AA |
| Edge | |
| 1 (Type/Class) | Biobase.Secondary.Basepair, Biobase.Secondary |
| 2 (Data Constructor) | Biobase.Secondary.Basepair, Biobase.Secondary |
| ExtPair | Biobase.Secondary.Basepair, Biobase.Secondary |
| ExtPairAnnotation | Biobase.Secondary.Basepair, Biobase.Secondary |
| ExtPairIdx | Biobase.Secondary.Basepair, Biobase.Secondary |
| F | Biobase.Primary.AA |
| foldStructure | Biobase.Secondary.Diagrams, Biobase.Secondary |
| fromD1S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| fromD2S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| fromDegenerate | Biobase.Primary.IUPAC, Biobase.Primary |
| fromViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| G | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.RNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.DNA |
| 3 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 4 (Data Constructor) | Biobase.Primary.IUPAC |
| 5 (Data Constructor) | Biobase.Primary.AA |
| GC | Biobase.Secondary.Vienna, Biobase.Secondary |
| getClasses | Biobase.Secondary.Isostericity, Biobase.Secondary |
| GU | Biobase.Secondary.Vienna, Biobase.Secondary |
| H | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| 3 (Data Constructor) | Biobase.Secondary.Basepair, Biobase.Secondary |
| hash2primary | Biobase.Primary.Hashed, Biobase.Primary |
| HashedPrimary | |
| 1 (Type/Class) | Biobase.Primary.Hashed, Biobase.Primary |
| 2 (Data Constructor) | Biobase.Primary.Hashed, Biobase.Primary |
| I | Biobase.Primary.AA |
| inClass | Biobase.Secondary.Isostericity, Biobase.Secondary |
| isCanonicalStructure | Biobase.Secondary.Diagrams, Biobase.Secondary |
| isConstraintStructure | Biobase.Secondary.Diagrams, Biobase.Secondary |
| IsostericityLookup | Biobase.Secondary.Isostericity, Biobase.Secondary |
| isViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| iupacNucleotides | Biobase.Primary.IUPAC, Biobase.Primary |
| iupacXDNAchars | Biobase.Primary.IUPAC, Biobase.Primary |
| K | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| L | Biobase.Primary.AA |
| Letter | |
| 1 (Type/Class) | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| 2 (Data Constructor) | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| M | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| MkConstraint | Biobase.Secondary.Constraint, Biobase.Secondary |
| mkConstraint | Biobase.Secondary.Constraint, Biobase.Secondary |
| mkD1S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| MkD1Secondary | Biobase.Secondary.Diagrams, Biobase.Secondary |
| mkD2S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| MkD2Secondary | Biobase.Secondary.Diagrams, Biobase.Secondary |
| mkHashedPrimary | Biobase.Primary.Hashed, Biobase.Primary |
| mkIsostericityList | Biobase.Secondary.Isostericity, Biobase.Secondary |
| mkIsostericityMap | Biobase.Secondary.Isostericity, Biobase.Secondary |
| MkPrimary | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| MkViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| mkViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| MV_CTisomerism | Biobase.Secondary.Basepair, Biobase.Secondary |
| MV_Edge | Biobase.Secondary.Basepair, Biobase.Secondary |
| MV_HashedPrimary | Biobase.Primary.Hashed, Biobase.Primary |
| MV_Letter | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| MV_ViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| N | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.RNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.DNA |
| 3 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 4 (Data Constructor) | Biobase.Primary.IUPAC |
| 5 (Data Constructor) | Biobase.Primary.AA |
| nobonusCC | Biobase.Secondary.Constraint, Biobase.Secondary |
| NP | Biobase.Secondary.Vienna, Biobase.Secondary |
| NS | Biobase.Secondary.Vienna, Biobase.Secondary |
| P | Biobase.Primary.AA |
| Pair | Biobase.Secondary.Basepair, Biobase.Secondary |
| PairIdx | Biobase.Secondary.Basepair, Biobase.Secondary |
| pairToString | Biobase.Secondary.Vienna, Biobase.Secondary |
| parsedCSV | Biobase.Secondary.Isostericity, Biobase.Secondary |
| Primary | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| primary | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| Q | Biobase.Primary.AA |
| R | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| removeByCounting | Biobase.Secondary.Pseudoknots, Biobase.Secondary |
| RemovePseudoKnots | Biobase.Secondary.Pseudoknots, Biobase.Secondary |
| revPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| RNA | Biobase.Primary.Nuc.RNA, Biobase.Primary.Nuc, Biobase.Primary |
| rnaChar | Biobase.Primary.Nuc.RNA, Biobase.Primary.Nuc, Biobase.Primary |
| rnaGxna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| rnaSeq | Biobase.Primary.Nuc.RNA, Biobase.Primary.Nuc, Biobase.Primary |
| rnaTdna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| S | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| 3 (Data Constructor) | Biobase.Secondary.Basepair, Biobase.Secondary |
| SecondaryStructure | Biobase.Secondary.Structure, Biobase.Secondary |
| SS | Biobase.Secondary.Structure, Biobase.Secondary |
| SSExtern | Biobase.Secondary.Diagrams, Biobase.Secondary |
| SSTree | |
| 1 (Type/Class) | Biobase.Secondary.Diagrams, Biobase.Secondary |
| 2 (Data Constructor) | Biobase.Secondary.Diagrams, Biobase.Secondary |
| Stop | Biobase.Primary.AA |
| structures | Biobase.Secondary.Diagrams, Biobase.Secondary |
| T | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.DNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 3 (Data Constructor) | Biobase.Primary.IUPAC |
| 4 (Data Constructor) | Biobase.Primary.AA |
| THH | Biobase.Secondary.Basepair, Biobase.Secondary |
| THS | Biobase.Secondary.Basepair, Biobase.Secondary |
| THW | Biobase.Secondary.Basepair, Biobase.Secondary |
| toDegenerate | Biobase.Primary.IUPAC, Biobase.Primary |
| transcribe | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| Trn | Biobase.Secondary.Basepair, Biobase.Secondary |
| TSH | Biobase.Secondary.Basepair, Biobase.Secondary |
| TSS | Biobase.Secondary.Basepair, Biobase.Secondary |
| TSW | Biobase.Secondary.Basepair, Biobase.Secondary |
| TWH | Biobase.Secondary.Basepair, Biobase.Secondary |
| TWS | Biobase.Secondary.Basepair, Biobase.Secondary |
| TWW | Biobase.Secondary.Basepair, Biobase.Secondary |
| U | |
| 1 (Data Constructor) | Biobase.Primary.Nuc.RNA |
| 2 (Data Constructor) | Biobase.Primary.Nuc.XNA |
| 3 (Data Constructor) | Biobase.Primary.IUPAC |
| UA | Biobase.Secondary.Vienna, Biobase.Secondary |
| UG | Biobase.Secondary.Vienna, Biobase.Secondary |
| unConstraint | Biobase.Secondary.Constraint, Biobase.Secondary |
| unCT | Biobase.Secondary.Basepair, Biobase.Secondary |
| unD1S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| unD2S | Biobase.Secondary.Diagrams, Biobase.Secondary |
| Undef | |
| 1 (Data Constructor) | Biobase.Secondary.Vienna, Biobase.Secondary |
| 2 (Data Constructor) | Biobase.Primary.AA |
| unEdge | Biobase.Secondary.Basepair, Biobase.Secondary |
| unHashedPrimary | Biobase.Primary.Hashed, Biobase.Primary |
| unLetter | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| unsafeDotBracket2pairlist | Biobase.Secondary.Diagrams, Biobase.Secondary |
| unViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| updL | Biobase.Secondary.Basepair, Biobase.Secondary |
| updP | Biobase.Secondary.Basepair, Biobase.Secondary |
| updR | Biobase.Secondary.Basepair, Biobase.Secondary |
| updT | Biobase.Secondary.Basepair, Biobase.Secondary |
| V | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| ViennaPair | |
| 1 (Type/Class) | Biobase.Secondary.Vienna, Biobase.Secondary |
| 2 (Data Constructor) | Biobase.Secondary.Vienna, Biobase.Secondary |
| viennaPairTable | Biobase.Secondary.Vienna, Biobase.Secondary |
| viennaStringDistance | Biobase.Secondary.Diagrams, Biobase.Secondary |
| V_CTisomerism | Biobase.Secondary.Basepair, Biobase.Secondary |
| V_Edge | Biobase.Secondary.Basepair, Biobase.Secondary |
| V_HashedPrimary | Biobase.Primary.Hashed, Biobase.Primary |
| V_Letter | Biobase.Primary.Letter, Biobase.Primary.Nuc, Biobase.Primary |
| V_ViennaPair | Biobase.Secondary.Vienna, Biobase.Secondary |
| W | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| 3 (Data Constructor) | Biobase.Secondary.Basepair, Biobase.Secondary |
| X | Biobase.Primary.AA |
| XNA | Biobase.Primary.Nuc.XNA, Biobase.Primary.Nuc, Biobase.Primary |
| xnaChar | Biobase.Primary.Nuc.XNA, Biobase.Primary.Nuc, Biobase.Primary |
| xnaSdna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| xnaSeq | Biobase.Primary.Nuc.XNA, Biobase.Primary.Nuc, Biobase.Primary |
| xnaSrna | Biobase.Primary.Nuc.Conversion, Biobase.Primary.Nuc, Biobase.Primary |
| Y | |
| 1 (Data Constructor) | Biobase.Primary.IUPAC |
| 2 (Data Constructor) | Biobase.Primary.AA |
| Z | Biobase.Primary.AA |
| _ssAux | Biobase.Secondary.Structure, Biobase.Secondary |
| _ssExt | Biobase.Secondary.Structure, Biobase.Secondary |
| _ssSeq | Biobase.Secondary.Structure, Biobase.Secondary |
| _ssVienna | Biobase.Secondary.Structure, Biobase.Secondary |
| _ssViennaE | Biobase.Secondary.Structure, Biobase.Secondary |