c_net_set: Set basic attributes from totu table

In MetaNet: Network Analysis for Omics Data

Set basic attributes from totu table

Description

Set basic attributes from totu table

Usage

c_net_set(
  go,
  ...,
  vertex_group = "v_group",
  vertex_class = "v_class",
  vertex_size = "size",
  edge_type = "e_type",
  edge_class = "e_class",
  edge_width = "width",
  node_break = 5,
  edge_break = 5
)

Arguments

go	metanet an igraph object
...	some data.frames to annotate go
vertex_group	choose which column to be vertex_group (map to vertex_shape)
vertex_class	choose which column to be vertex_class (map to vertex_color)
vertex_size	choose which column to be vertex_size (map to vertex_size)
edge_type	choose which column to be edge_type (map to edge_color)
edge_class	choose which column to be edge_class (map to edge_linetype)
edge_width	choose which column to be edge_width (map to edge_width)
node_break	node_break if v_class is numeric, default: 5
edge_break	edge_break if e_type is numeric, default: 5

Value

a metanet object

See Also

Other build: c_net_build(), c_net_from_edgelist(), c_net_update(), multi_net_build()

Examples

data("otutab", package = "pcutils")
t(otutab) -> totu
metadata[, 3:10] -> env

data("c_net")
co_net <- c_net_set(co_net, taxonomy, data.frame("Abundance" = colSums(totu)),
  vertex_class = "Phylum", vertex_size = "Abundance"
)
co_net2 <- c_net_set(co_net2, taxonomy, data.frame(name = colnames(env), env = colnames(env)),
  vertex_class = c("Phylum", "env")
)
co_net2 <- c_net_set(co_net2, data.frame("Abundance" = colSums(totu)), vertex_size = "Abundance")

MetaNet documentation built on May 29, 2024, 1:21 a.m.