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alakazam (version 0.2.11)

AbundanceCurve-class: S4 class defining a clonal abundance curve

Description

AbundanceCurve defines clonal abundance values.

Usage

# S4 method for AbundanceCurve
print(x)
# S4 method for AbundanceCurve,missing
plot(x, y, ...)

Arguments

x

AbundanceCurve object

y

ignored.

...

arguments to pass to plotDiversityCurve.

Slots

data

data.frame with relative clonal abundance data and confidence intervals, containing the following columns:

  • GROUP: group identifier.

  • CLONE: clone identifier.

  • P: relative abundance of the clone.

  • LOWER: lower confidence inverval bound.

  • UPPER: upper confidence interval bound.

  • RANK: the rank of the clone abundance.

groups

character vector of group values.

n

numeric vector indication the number of sequences in each group.

nboot

number of bootstrap realizations performed.

ci

confidence interval defining the upper and lower bounds (a value between 0 and 1).