AbSeqCRep is a collection of AbSeqRep S4 objects.
This S4 class contains multiple samples(repertoires) and it can be
"combined" with other samples by using the
+ operator to
create an extended AbSeqCRep object.
This value, in turn, can be used as the first argument to
report which generates a comparison between all samples included
Users do not manually construct this class, but rather indirectly obtain
this class object as a return value from the
+ operation between two
AbSeqRep objects, which are in turn, obtained indirectly from
abseqReport and report functions. It is also possible to
obtain this class object by
+ (adding) AbSeqCRep objects.
list of AbSeqRep objects.
1 2 3 4 5 6 7 8 9 10 11 12 13
# Use example data from abseqR as abseqPy's output, substitute this # with your own abseqPy output directory abseqPyOutput <- tempdir() file.copy(system.file("extdata", "ex", package = "abseqR"), abseqPyOutput, recursive=TRUE) samples <- abseqReport(file.path(abseqPyOutput, "ex"), report = 0) # The provided example data has PCR1, PCR2, and PCR3 samples contained within # pcr12 and pcr13 are instances of AbSeqCRep pcr12 <- samples[["PCR1"]] + samples[["PCR2"]] pcr13 <- samples[["PCR1"]] + samples[["PCR3"]] # all_S is also an instance of AbSeqCRep all_S <- pcr12 + pcr13
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