plot_modules_merge: Modules merge plot

In GWENA: Pipeline for augmented co-expression analysis

Description

Plot a bipartite graph to see in which modules all modules have been merged

Usage

plot_modules_merge(
  modules_premerge,
  modules_merged,
  zoom = 1,
  vertex_size = 6,
  vertex_label_color = "gray20",
  vertex_label_family = "Helvetica",
  vertex_label_cex = 0.8,
  vertex_color = "lightskyblue",
  vertex_frame_color = "white",
  window_x_min = -1,
  window_x_max = 1,
  window_y_min = -1,
  window_y_max = 1,
  ...
)

Arguments

modules_premerge	vector, id (whole number or string) of module before merge associated to each gene.
modules_merged	vector, id (whole number or string) of module after merge associated to each gene.
zoom	decimal, value to which the display will be increased/decreased.
vertex_size	integer, size of the vertices.
vertex_label_color, vertex_color, vertex_frame_color	string, name of the color or hexadecimal code.
vertex_label_family	string, font family name.
vertex_label_cex	decimal, value for font size.
window_x_min	decimal, value for the bottom limit of the window.
window_x_max	decimal, value for the top limit of the window.
window_y_min	decimal, value for the left limit of the window.
window_y_max	decimal, value for the right limit of the window.
...	additional arguments to be passed to igraph::plot.igraph().

Details

Both vectors must be in the same gene order before passing them to the function. No check is applied on this.

Value

The layout of the plot

Examples

df <- kuehne_expr[1:24, 1:350]
net <- build_net(df, n_threads = 1)
detection <- detect_modules(df, net$network, detailled_result = TRUE)
plot_modules_merge(modules_premerge = detection$modules_premerge,
                   modules_merged = detection$modules)

GWENA documentation built on Feb. 17, 2021, 2:01 a.m.