similarityScore: Similarity score

In davidcoffey/LymphoSeq: Analyze high-throughput sequencing of T and B cell receptors

Description

Calculates the similarity score of two samples.

Usage

similarityScore(sample1, sample2)

Arguments

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.

Value

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.

See Also

similarityMatrix

Examples

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"]])

davidcoffey/LymphoSeq documentation built on Dec. 31, 2019, 9:52 p.m.