topSeqs: Top sequences

In shashidhar22/LymphoSeq2: Analyze high-throughput sequencing of T and B cell receptors

Top sequences

Description

Creates a tibble of a selected number of top productive sequences from the study table.

Usage

topSeqs(productive_table, top = 1)

Arguments

productive_table	A tibble of productive sequences generated by the LymphoSeq2 function productiveSeq(). "duplicate_frequency" and "junction_aa" are a required columns.
top	The number of top productive sequences in each data frame to subset by their frequencies.

Value

Returns a tibble of a selected number of top productive sequences from a list of data frames.

See Also

chordDiagramVDJ()

Examples

file_path <- system.file("extdata", "TCRB_sequencing",
 package = "LymphoSeq2")
study_table <- LymphoSeq2::readImmunoSeq(path = file_path, threads = 1)
amino_table <- LymphoSeq2::productiveSeq(study_table = study_table,
 aggregate = "junction_aa")
top_seqs <- LymphoSeq2::topSeqs(productive_table = amino_table, top = 1)

shashidhar22/LymphoSeq2 documentation built on Jan. 16, 2024, 4:29 a.m.