similarityScore: Similarity score
In LymphoSeq: Analyze high-throughput sequencing of T and B cell receptors

Description Usage Arguments Value See Also Examples

Calculates the similarity score of two samples.

1	similarityScore(sample1, sample2)

`sample1`	A data frame consisting of frequencies of antigen receptor sequences. "aminoAcid" and "count" are a required columns.
`sample2`	A data frame consisting of frequencies of antigen receptor sequences. "aminoAcid" and "count" are a required columns.

Returns the similarity score, 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.

similarityMatrix

file.path <- system.file("extdata", "TCRB_sequencing", package = "LymphoSeq")

file.list <- readImmunoSeq(path = file.path)

productive.aa <- productiveSeq(file.list, aggregate = "aminoAcid")

similarityScore(productive.aa[["TRB_Unsorted_32"]], productive.aa[["TRB_Unsorted_83"]])