diff --git a/AQP/aqp/L1-profiles.Rmd b/AQP/aqp/L1-profiles.Rmd index 67d452a..a88bba6 100644 --- a/AQP/aqp/L1-profiles.Rmd +++ b/AQP/aqp/L1-profiles.Rmd @@ -88,11 +88,11 @@ s$pc1 <- pc.scores[, 1] d <- NCSP(s, vars = c('p1', 'p2', 'p3'), maxDepth = 100, rescaleResult = TRUE) # simple clustering for viz -h <- hclust(d, method = 'ward.D') +h <- hclust(d, method = 'ward.D2') # viz par(mar = c(0, 0, 3, 1.5)) -plotProfileDendrogram(s, clust = h, color = 'pc1', y.offset = 0.2, scaling.factor = 0.018, width = 0.3, name = NA, cex.depth.axis = 0.85, divide.hz = FALSE) +plotProfileDendrogram(s, clust = h, color = 'pc1', y.offset = 0.2, scaling.factor = 0.018, width = 0.3, name = NA, depth.axis = list(cex = 0.85), divide.hz = FALSE) ``` @@ -163,7 +163,7 @@ names(z.long)[1] <- 'group' names(z.long)[5] <- 'p.q50' z.long$p.q25 <- NA z.long$p.q75 <- NA -# not sure how we can best utlize this +# not sure how we can best utilize this z.long$contributing_fraction <- 0 z.long <- z.long[, new.vars] @@ 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