ScoperClones-class - S4 class containing clonal assignments and summary data
Description¶
ScoperClones
stores output from identicalClones, hierarchicalClones and
spectralClones functions.
Usage¶
"print"(x)
"summary"(object)
"plot"(x, y, ...)
"as.data.frame"(x)
Arguments¶
- x
- ScoperClones object
- object
- ScoperClones object
- y
- ignored.
- …
- arguments to pass to plotCloneSummary.
Slots¶
db
data.frame
of repertoire data including with clonal identifiers in the column specified during processing.vjl_groups
data.frame
of clonal summary, including sequence count, V gene, J gene, junction length, and clone counts.inter_intra
data.frame
containing minimum inter (between) and maximum intra (within) clonal distances.eff_threshold
- effective cut-off separating the inter (between) and intra (within) clonal distances.