calc_deltaSNPindex: Calculate delta(SNP index)
In EG-lisy/BSAvis: Bulk Segregant Analysis - Visualisation Package

Description Usage Arguments Details Value Examples

This function is used to calculate the ∆(SNP-index) by subtracting the SNP-index value of the wild-type bulk from the SNP-index value of the mutant bulk.

mean_M_SNPindex - mean_WT_SNPindex.WT

1	calc_deltaSNPindex(SNPindex.windows)

SNPindex.windows

data frame obtained after running the slidingWindow()function

For each row in the data frame returned by slidingWindow(), corresponding to a different window, ∆(SNP-index) is calculated by subtracting the SNP-index value of the reference bulk to the SNP-index value of the mutant bulk. The values of ∆(SNP-index)ineach window are added to the data frame as a new column.

Data frame containing start, mid and stop positions of each window in the chromosome, as well as the corresponding mean SNP-index value for each bulk and ∆(SNP-index)value.