bhattacharyyaMatrix {LymphoSeq} | R Documentation |
Calculates the Bhattacharyya coefficient of all pairwise comparison from a list of data frames.
bhattacharyyaMatrix(productive.seqs)
productive.seqs |
A list data frames of productive sequences generated by the LymphoSeq function productiveSeq. "frequencyCount" and "aminoAcid" are a required columns. |
A data frame of Bhattacharyya coefficients calculated from all pairwise comparisons from a list of sample data frames. The Bhattacharyya coefficient is a measure of the amount of overlap between two samples. The value ranges from 0 to 1 where 1 indicates the sequence frequencies are identical in the two samples and 0 indicates no shared frequencies.
pairwisePlot
for plotting results as a heat map.
file.path <- system.file("extdata", "TCRB_sequencing", package = "LymphoSeq") file.list <- readImmunoSeq(path = file.path) productive.aa <- productiveSeq(file.list, aggregate = "aminoAcid") bhattacharyyaMatrix(productive.seqs = productive.aa)