R: Return the nucleotide sequences of a genotype

genotypeFasta {tigger}

R Documentation

Return the nucleotide sequences of a genotype

genotypeFasta converts a genotype table into a vector of nucleotide sequences.

genotypeFasta(genotype, germline_db, novel = NA)

`genotype`	`data.frame` of alleles denoting a genotype, as returned by inferGenotype.
`germline_db`	vector of named nucleotide germline sequences matching the alleles detailed in `genotype`.
`novel`	an optional `data.frame` containing putative novel alleeles of the type returned by findNovelAlleles.

A named vector of strings containing the germline nucleotide sequences of the alleles in the provided genotype.

# Find the sequences that correspond to the genotype
genotype_db <- genotypeFasta(SampleGenotype, SampleGermlineIGHV, SampleNovel)

[Package tigger version 1.0.0 Index]