Uses of Class
org.snpeff.codons.CodonTable
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Packages that use CodonTable Package Description org.snpeff.codons org.snpeff.interval org.snpeff.snpEffect org.snpeff.snpEffect.testCases.unity -
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Uses of CodonTable in org.snpeff.codons
Methods in org.snpeff.codons that return CodonTable Modifier and Type Method Description CodonTable
CodonTables. getTable(java.lang.String codonTableName)
Get a codon table by nameCodonTable
CodonTables. getTable(Genome genome)
Get default genome-wide codon tableCodonTable
CodonTables. getTable(Genome genome, java.lang.String chromosome)
Get a codon table WARNING: It will return the standard codon table if nothing if foundMethods in org.snpeff.codons that return types with arguments of type CodonTable Modifier and Type Method Description java.util.Iterator<CodonTable>
CodonTables. iterator()
Methods in org.snpeff.codons with parameters of type CodonTable Modifier and Type Method Description void
CodonTables. add(CodonTable codonTable)
Add a codon tablevoid
CodonTables. set(Genome genome, CodonTable codonTable)
Set a codon table for a all chromosomes in a genome I.e.: Default genome-wide chromosome tablevoid
CodonTables. set(Genome genome, Chromosome chr, CodonTable codonTable)
Set a codon table for a given genome & chromosome -
Uses of CodonTable in org.snpeff.interval
Methods in org.snpeff.interval that return CodonTable Modifier and Type Method Description CodonTable
Marker. codonTable()
Get a suitable codon tableCodonTable
Chromosome. getCodonTable()
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Uses of CodonTable in org.snpeff.snpEffect
Constructors in org.snpeff.snpEffect with parameters of type CodonTable Constructor Description PurityChange(CodonTable codonTable)
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Uses of CodonTable in org.snpeff.snpEffect.testCases.unity
Fields in org.snpeff.snpEffect.testCases.unity declared as CodonTable Modifier and Type Field Description protected CodonTable
TestCasesBase. codonTable
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