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Plots the TMM pathway with colored nodes and labels with interactive network.

Source: R/fast_psf_functions.R
plot_tmm_pathway.Rd

Plots the TMM pathway with colored nodes and labels with interactive network.

Usage

plot_tmm_pathway(
  pathway,
  no_color_mode = F,
  mapping_data_type = "signal",
  log_norm = TRUE,
  layout = "layout_nicely"
)

Arguments

pathway

pathway object.

no_color_mode

whetherto colorcode nodes based on node values or not. Default value is FALSE.

mapping_data_type

type of node values to be visualized. When value type is specified pathway nodes will be color coded with expression FC values or PSF values and color legend will be added to the pathway plot. Possible values are c(NULL, "signal", "exp_fc"). Default value is signal.

log_norm

log transform PSF and expression values before color mapping. Default value is TRUE.

layout

layout type of the pathway. Default value is layout_nicely. Available values c("layout_nicely").