The genetic code maps codons to amino acids.
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#include <geneticcode.hh>
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static void | init () |
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static void | printReverseGeneticMap () |
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static void | chooseTranslationTable (int) |
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static int | get_aa_from_symbol (char c) |
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static char | translate (int n) |
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static char | translate (const char *t) |
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static char | revtranslate (const char *t) |
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static bool | isStopcodon (const char *t) |
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static bool | isStartcodon (const char *t, bool rc=false) |
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static bool | isStartcodon (int pn) |
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static Double | startCodonProb (const char *t, bool rc=false) |
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static Double | startCodonProb (int pn) |
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static bool | isRCStopcodon (const char *t) |
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static bool | containsInFrameStopcodon (const char *, int, int, bool, int) |
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static void | printStartCodons () |
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static void | trainStartCodonProbs (int startcounts[]) |
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static void | writeStart (ofstream &out) |
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static void | readStart (ifstream &in) |
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static bool | is_purine (int b) |
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static ORF | longestORF (const char *dna) |
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static const char *const | aa_symbols = aa_symbols_with_stop + 1 |
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| static const char *const | aa_names [] |
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| static int | map [] |
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static int ** | syncodons = 0 |
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static int * | codonsOfAA = 0 |
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The genetic code maps codons to amino acids.
- Author
- Mario Stanke
◆ aa_names
| const char *const GeneticCode::aa_names |
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Initial value:= {"GLYCINE","ASPARTIC ACID","GLUTAMIC ACID","ARGININE","LYSINE","ASPARAGINE",
"GLUTAMINE","SERINE","THREONINE","ALANINE","VALINE","LEUCINE",
"ISOLEUCINE","PHENYLALANINE","TYROSINE","TRYPTOPHAN","HISTIDINE",
"METHIONINE","CYSTEINE","PROLINE"}
◆ map
Initial value:= { 4, 5, 4, 5,
8, 8, 8, 8,
3, 7, 3, 7,
12,12,17,12,
6,16, 6,16,
19,19,19,19,
3, 3, 3, 3,
11,11,11,11,
2, 1, 2, 1,
9, 9, 9, 9,
0, 0, 0, 0,
10,10,10,10,
-1,14,-1,14,
7, 7, 7, 7,
-1,18,15,18,
11,13,11,13
}
The documentation for this class was generated from the following files:
