Plot a distribution from a model

plot_module_distribution(
  compendium = "vespucci",
  module = NULL,
  normalization = "legacy",
  type = "json",
  plot = TRUE,
  plotType = "biological_features_uncentered_correlation_distribution",
  getRank = FALSE
)

Arguments

compendium	A string - the selected compendium
module	A matrix with valid rownames (biofeatureNames) and colnames (samplesetsNames)
normalization	A string - either 'limma','tpm' or legacy as normalization
type	A string - either 'html' or 'json
plot	A logical - it return the graphics object
plotType	A string - see `get_available_plot_methods`
getRank	A logical - if TRUE return the ranking

Value

Either a json, an html, a plotly htmlwidget or a data.frame with the ranking

Examples

if (FALSE) {
gene_names <- c('VIT_00s0246g00220','VIT_00s0332g00060','VIT_00s0332g00110',
'VIT_00s0332g00160','VIT_00s0396g00010','VIT_00s0505g00030','VIT_00s0505g00060',
'VIT_00s0873g00020','VIT_00s0904g00010')
module_1 <- create_module(biofeaturesNames=gene_names, normalization = "legacy")
plot_module_distribution(module = module_1,
plotType = "biological_features_uncentered_correlation_distribution", plot = TRUE)
plot_module_distribution(module = module_1,
plotType = "sample_sets_magnitude_distribution", plot = TRUE)
plot_module_distribution(module = module_1,
plotType = "sample_sets_coexpression_distribution", plot = TRUE)
}