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Write a network saving it in an XGMML file.

write_xgmml.Rd

Write a network on disk, saving it in an XGMML file, for importing it in Cytoscape.

Usage

write_xgmml(
  x,
  path = "./network",
  write.wpdag = FALSE,
  node.col = rep("white", num.nodes(x)),
  frac = 0.2,
  max.weight = max(wpdag(x))
)

# S4 method for BN
write_xgmml(
  x,
  path = "./network",
  write.wpdag = FALSE,
  node.col = rep("white", num.nodes(x)),
  frac = 0.2,
  max.weight = max(wpdag(x))
)

Arguments

x

the BN object.

path

file name with relative or absolute path to be written.

write.wpdag

write the weighted PDAG computed using bootstrap samples or the MMPC structure algorithm, instead of the normaldag (default FALSE).

node.col

vector of colors for each node of the network (in R colornames).

frac

minimum fraction [0,1] of presence of an edge to be plotted (used in case of write.wpdag=TRUE).

max.weight

maximum possible weight of an edge (used in case of write.wpdag=TRUE).