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Extract unproductive sequences from a RepSeqExperiment object, which include:

- out-of-frame sequences: sequences with frame shifts based on the number of nucleotides in the ntCDR3 column

- sequences containing stop codons: aaCDR3s with a "*" or "~" symbols.

Usage

getUnproductive(x)

Arguments

x

an object of class RepSeqExperiment.

Value

a filtered RepSeqExperiment object exclusively containing unproductive sequences.

Examples


data(RepSeqData)

unproductiveData <- getUnproductive(x = RepSeqData)