Extract productive sequences from a RepSeqExperiment object by filtering out unproductive ones. Filtered sequences 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.
Arguments
- x
an object of class
RepSeqExperiment.
Value
a filtered RepSeqExperiment object exclusively
containing productive sequences.
Examples
data(RepSeqData)
productiveData <- getProductive(x = RepSeqData)