Man pages for caggtaagtat/ModCon
Modifying splice site usage by changing the mRNP code, while maintaining the genetic code
| calculateHZEIint | Calculate HZEI integral of nucleotide sequence |
| calculateMaxEntScanScore | Calculate MaxEntScan score of a splice site sequence |
| cds | CDS of firefly luciferase |
| changeSequenceHZEI | Adjust HZEI integral of nucleotide sequence |
| Codons | Table of codons and encoded amino acids |
| createCodonMatrix | Create codon matrix from coding nucleotide sequence |
| createFilialSequencePopulation | Generate new sequences by recombination |
| decreaseGTsiteStrength | Remove or degrade intrinsic strength of specific GT site... |
| degradeSAs | Remove or degrade intrinisc strength of splice acceptors... |
| degradeSDs | Remove or degrade intrinisc strength of splice donors while... |
| generateRandomCodonsPerAA | Randomly choose Codon to encode amino acid sequence |
| getOverlappingVectorsFromVector | Create overlapping subvectors |
| hbg | Donor sequences and their HBS |
| hex | Hexamers and Z scores |
| increaseGTsiteStrength | Increasing intrinsic strength of specific GT site while... |
| ModCon | ModCon |
| mutatePopulation | Randomly exchange codons within a set of sequences. |
| recombineTwoSequences | Generate new sequence from recombination of two sequences |
| selectBestAndMean | Select best HZEI and mean |
| selectMatingIndividuals | Selecting mating sequences from a pool of sequences |
| slidingWindowHZEImanipulation | Quickly manipulate HZEI integral of nucleotide sequence |
| startModConApp | Start GUI of VarCon. |
