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In the Sankey diagram, each node either represents a variable (exposure, omics or outcome) or a latent cluster. Each line represents an association. The color of the node represents variable type, either exposure, omics or outcome. The width of the line represents the effect size of a certain association; the color of the line represents the direction of a certain association. Only work for LUCID early for now.
plot_lucid(
x,
G_color = "dimgray",
X_color = "#eb8c30",
Z_color = "#2fa4da",
Y_color = "#afa58e",
pos_link_color = "#67928b",
neg_link_color = "#d1e5eb",
fontsize = 7
)A DAG graph created by sankeyNetwork
A LUCID model fitted by estimate_lucid
Color of node for exposure
Color of node for latent cluster
Color of node for omics data
Color of node for outcome
Color of link corresponds to positive association
Color of link corresponds to negative association
Font size for annotation
# prepare data
G <- sim_data$G
Z <- sim_data$Z
Y_normal <- sim_data$Y_normal
Y_binary <- sim_data$Y_binary
cov <- sim_data$Covariate
# plot lucid model
fit1 <- estimate_lucid(G = G, Z = Z, Y = Y_normal, lucid_model = "early",
CoY = NULL, family = "normal", K = 2, seed = 1008)
plot_lucid(fit1)
# change node color
plot_lucid(fit1, G_color = "yellow")
plot_lucid(fit1, Z_color = "red")
# change link color
plot_lucid(fit1, pos_link_color = "red", neg_link_color = "green")
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