lohSpec_lohCalc {GenVisR} | R Documentation |
Obtain LOH on an entire chromsomes from samples in a cohort
lohSpec_lohCalc(window_data, out, normal)
window_data |
object of class data frame with columns 'window_start' and 'window_stop |
out |
object of class dataframe with columns 'chromosome', 'position', 'n_vaf', 't_vaf', and 'sample' |
normal |
integer specifying the subtraction value from tumor VAF |
object of class dataframe containing mean LOH difference calculations and column names "window_start", "window_stop", "chromosome", "position", "n_vaf", "t_vaf", "sample", "loh_diff"