removeSeq: Remove sequence

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

Description

Removes an amino acid sequence and associated data from all instances within a list of data frames and then recomputes the frequencyCount.

Usage

removeSeq(file.list, sequence)

Arguments

file.list	A list of data frames imported using the LymphoSeq function readImmunoSeq. "aminoAcid", "count", and "frequencyCount" are required columns.
sequence	A character vector of one or more amino acid sequences to remove from the list of data frames.

Value

Returns a list of data frames like the one imported except all rows with the specified amino acid sequence are removed. The frequencyCount is recalculated.

Examples

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

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

searchSeq(list = file.list, sequence = "CASSDLIGNGKLFF")

cleansed <- removeSeq(file.list = file.list, sequence = "CASSDLIGNGKLFF")

searchSeq(list = cleansed, sequence = "CASSDLIGNGKLFF")

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