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Expand file tree Collapse file tree Original file line number Diff line number Diff line change @@ -175,15 +175,15 @@ from the context dataset. The distribution of the nuclotide diversity is assumed
175175` r div_values[["norm.text"]] ` be normal after performing a Shapiro-Wilk test
176176(p-value of $` r div_values[["normal.pvalue"]] ` $).
177177
178- The nucleotide diversity of the target samples is $` r format(div_values[["diversity"]], scientific = TRUE) ` $ (red line in @fig-div ).
178+ The nucleotide diversity of the target samples is $` r format(div_values[["diversity"]], scientific = TRUE) ` $ (vertical line in @fig-div ).
179179Assuming the independence of the context samples, the ` r div_values[["type.test"]] `
180- p-value of the context samples having a nucleotide diversity (in orange in @fig-div )
180+ p-value of the context samples having a nucleotide diversity (smooth curve in @fig-div )
181181as low as that of the target dataset is $` r div_values[["p.value"]] ` $.
182182
183- ![ Analysis of the nucleotide diversity (π). The orange line describes
183+ ![ Analysis of the nucleotide diversity (π). The smooth curve describes
184184a normal distribution with the same mean and standard deviation as the distribution
185185of π from $` r div_values[["boot.reps"]] ` $ subsets of $` r div_values[["sample.size"]] ` $
186- sequences from the context. The red vertical line indicates the π value of the
186+ sequences from the context. The vertical line indicates the π value of the
187187target samples.] (` r params$div ` ){#fig-div}
188188
189189## Evolutionary trajectory of the serially-sampled SARS-CoV-2 infection
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