Return the given data frame with in-frame or out-of-frame sequences only. Nucleotide sequences in a column "CDR3.nucleotide.sequence" are checked if they length are divisible by 3 (len mod 3 == 0 => in-frame, else out-of-frame)
get.inframes(.data, .head = 0, .coding = T)get.outframes(.data, .head = 0)
count.inframes(.data, .head = 0, .coding = T)
count.outframes(.data, .head = 0)
get.frames(.data, .frame = c('in', 'out', 'all'), .head = 0, .coding = T)
count.frames(.data, .frame = c('in', 'out', 'all'), .head = 0, .coding = T)
MiTCR data.frame or a list with mitcr data.frames.
Parameter to the head() function. Supply 0 to get all elements. head applied before subsetting, i.e.
if .head == 500, you will get in-frames from the top 500 clonotypes.
if T then return only coding sequences, i.e. without stop-codon.
Which *-frames to choose.
Filtered data.frame or a list with such data.frames.