Cluster profile plot with Highcharts — cluster_profile

Builds an interactive plot showing the expression profiles of the proteins in a given cluster.

Usage

cluster_profile_highchart(
  data,
  cluster,
  conditions = NULL,
  min_membership = NULL,
  show_centroid = TRUE,
  centroid_summary = c("mean", "median"),
  cluster_color = NULL,
  line_width = 1,
  line_opacity = 0.4,
  centroid_width = 3,
  title = NULL,
  height = NULL
)

Arguments

data: Pattern Profiler DataFrame (LONG format)
cluster: Number of the cluster to plot
conditions: Vector of condition names (order for the X axis)
min_membership: Additional membership filter (NULL = no filter)
show_centroid: Show the centroid line (default: TRUE)
centroid_summary: Method for the centroid: "mean" or "median"
cluster_color: Cluster colour (NULL = automatic)
line_width: Width of the profile lines (default: 1)
line_opacity: Opacity of the lines (default: 0.4)
centroid_width: Width of the centroid line (default: 3)
title: Custom title (optional)
height: Plot height in pixels

Value

highchart object

Examples

if (requireNamespace("Mfuzz", quietly = TRUE) &&
    requireNamespace("e1071", quietly = TRUE)) {
  data(nadia_dia)
  res <- process_proteomics(nadia_dia, verbose = FALSE)
  pp <- pattern_profiler_analysis(res$se_proc, res$DEPs_results,
                                  assay_name = "Impseqrob_min",
                                  auto_select_c = FALSE, c = 3,
                                  verbose = FALSE)

  hc <- cluster_profile_highchart(pp$long_output, cluster = 1,
                                  conditions = c("A", "B", "D"))
  print(class(hc))
}
#> [1] "highchart"  "htmlwidget"