bacsnp.specificity: SNP specificity determination

In wennj/bacsnp: Analyzing single nucleotide polymorphisms from baculovirus sequencing data

SNP specificity determination

Description

SNP specificity determination

Usage

bacsnp.specificity(vcfdf, isolates, which.rel = "REL.ALT1")

Arguments

vcfdf	A dataframe with SNP frequencies. Data was created with vcf_transformation.
isolates	A character vector for which the SNP specificity determination is performed.
which.rel	Specifies the column of relativ SNP frequencies for which the specificity determination should be performed on.

Value

A list of two elements. First element is the input dataframe with SNP specificities added. The second element is a counting talbe with all SNP specificity combinations.

Examples

bacsnp.specificity(bac, c("iIsolate1", "iIsolate2"), which.rel = "REL.ALT1")

wennj/bacsnp documentation built on Oct. 20, 2022, 11:17 p.m.