Nothing
## ----echo = FALSE-------------------------------------------------------------
library(knitr)
opts_chunk$set(fig.width = 6, fig.height = 4)
## -----------------------------------------------------------------------------
library(phyloseq)
unlist(distanceMethodList)
## -----------------------------------------------------------------------------
library(ggplot2)
# not necessary, but I like the white background with ggplot
theme_set(theme_bw())
library(phyloseqGraphTest)
data(enterotype)
enterotype
## -----------------------------------------------------------------------------
gt = graph_perm_test(enterotype,
sampletype = "SeqTech",
distance = "jaccard",
type = "knn",
knn = 1)
gt
## -----------------------------------------------------------------------------
plot_test_network(gt)
## -----------------------------------------------------------------------------
plot_permutations(gt)
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