Remove sequence

Share:

Description

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

Usage

1
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

1
2
3
4
5
6
7
8
9
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")