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| AA2Binary | Amino Acid To Binary |
| AAindex | Amino Acid Index |
| AAKpartComposition | Amino Acid to K Part Composition |
| AAutoCor | Amino Acid Autocorrelation-Autocovariance |
| alphabetCheck | AlphabetCheck |
| APAAC | Amphiphilic Pseudo-Amino Acid Composition(APAAC) (series) |
| APkNUCdi | Amphiphilic Pseudo-k Nucleotide Composition-di(series) |
| APkNUCTri | Amphiphilic Pseudo-k Nucleotide Composition-Tri(series) |
| AutoCorDiNuc | Di Nucleotide Autocorrelation-Autocovariance |
| AutoCorTriNuc | Tri Nucleotide Autocorrelation-Autocovariance |
| BLOSUM62 | Blosum62 |
| CkSAApair | Composition of k-Spaced Amino Acids pairs |
| CkSGAApair | Composition of k-Spaced Grouped Amino Acids pairs |
| CkSNUCpair | Composition of k-Spaced Nucleotides Pairs |
| codonAdaptionIndex | Codon Adaption Index |
| CodonFraction | Codon Fraction |
| CodonUsage | Codon Usage |
| conjointTriad | Conjoint Triad |
| conjointTriadKS | k-Spaced Conjoint Triad |
| CTD | Composition_Transition_Distribution |
| CTDC | CTDC(CTD Composition) |
| CTDD | CTDD(CTD Distribution) |
| CTDT | CTDT(CTD Transition) |
| DDE | Dipeptide Deviation from Expected Mean value |
| Dinuc2Binary | Dinucleotide To Binary |
| DiNucIndex | Di Nucleotide Index (DiNucIndex) |
| EAAComposition | Enhanced Amino Acid Composition |
| EffectiveNumberCodon | Effective Number of Codon |
| EGAAComposition | Enhanced Grouped Amino Acid Composition |
| EIIP | Electron-ion interaction pseudopotentials (EIIP) |
| ENUComposition | Enhanced nucleotide Composition |
| ExpectedValKmerNUC | Expected Value for k-mers(Nuc) |
| ExpectedValueAA | Expected Value for each Amino Acid |
| ExpectedValueGAA | Expected Value for Grouped Amino Acid |
| ExpectedValueGKmerAA | Expected Value for Grouped k-mers |
| ExpectedValueKmerAA | Expected Value for k-mers |
| fa.read | Fasta File Reader |
| fickettScore | Ficket Score |
| GAAKpartComposition | Grouped Amino Acid K Part Composition |
| GCcontent | G_C content |
| GrpDDE | Group Dipeptide Deviation from Expected Mean |
| kAAComposition | K Amino Acid Composition |
| kGAAComposition | K Grouped Amino Acid Composition |
| kNUComposition | K Nucleotide Composition |
| LocalPoSpKaaF | Local Position Specific k Amino Acids Frequency |
| LocalPoSpKnucF | Local Position Specific k Nucleotide Frequency |
| maxORF | Maximum Open Reading Frame |
| maxORFlength | Maximum Open Reading Frame length |
| nameKmer | nameKmer |
| needleman | Needleman-Wunsch |
| nonStandardSeq | nonStandard amino acid sequence |
| novel_PseKNC | Novel Pseudo k Nucleotide Composition (series) |
| NUC2Binary | Nucleotide To Binary |
| NUCKpartComposition | Nucleotide to K Part Composition |
| PSEAAC | Pseudo-Amino Acid Composition(PSEAAC) (Parallel) |
| PseEIIP | Pseudo Electron-ion Interaction Pseudopotentials of Trinucleotide(PseEIIP) |
| PSEkNCdi | Pseudo k Nucleotide Composition-Di(Parallel) |
| PSEkNCTri | Pseudo k Nucleotide Composition-Tri(Parallel) |
| PseKRAAC_T1 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_1) |
| PseKRAAC_T10 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_10) |
| PseKRAAC_T11 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_11) |
| PseKRAAC_T12 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_12) |
| PseKRAAC_T13 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_13) |
| PseKRAAC_T14 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_14) |
| PseKRAAC_T15 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_15) |
| PseKRAAC_T16 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_16) |
| PseKRAAC_T2 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_2) |
| PseKRAAC_T3A | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_3B) |
| PseKRAAC_T3B | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_3B) |
| PseKRAAC_T4 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_4) |
| PseKRAAC_T5 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_5) |
| PseKRAAC_T6A | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_6A) |
| PseKRAAC_T6B | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_6B) |
| PseKRAAC_T7 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_7) |
| PseKRAAC_T8 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_8) |
| PseKRAAC_T9 | Pseudo K_tuple Reduced Amino Acid Composition(PseKRAAComposition Type_9) |
| QSOrder | Quasi Sequence Order |
| revComp | reverseCompelement |
| SAAC | Splitted Amino Acid Composition(SAAC) |
| SGAAC | Splitted Group Amino Acid Composition(SGAAC) |
| SOCNumber | Sequence Order Coupling Number |
| TriNucIndex | Tri Nucleotide Index (TriNucIndex) |
| zSCALE | Z-SCALE |