R: Return the nucleotide sequences of a genotype

genotypeFasta {tigger} | R Documentation

## Return the nucleotide sequences of a genotype

### Description

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

### Usage

    genotypeFasta(genotype, germline_db, novel = NA)

### Arguments

`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.

### Value

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

### See Also

inferGenotype

### Examples

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

[Package tigger version 1.0.0 Index]