get_biofeature_ranking()

Source: R/queries.R

get_biofeature_ranking()

get_biofeature_ranking(
  compendium = "vespucci",
  samplesetNames = NULL,
  normalization = "legacy",
  rank = "uncentered_correlation",
  rankTarget = "biofeatures",
  top_n = 50,
  useIds = TRUE
)

Arguments

compendium

A string - the selected compendium
samplesetNames

A vector of character strings (here sampleset names)
normalization

A string ('legacy' as default)
rank

A string ('magnitude' as default) - use get_ranking
rankTarget

A string ('biofeature' as default)
top_n

A numeric - an integer for selecting the top ranked samplesets
useIds

A logical - TRUE as default

Value

A data.frame with three columns id, name, value

Examples

if (FALSE) {
my_ss <- c("U2FtcGxlU2V0VHlwZToyMTk4Nw==", "U2FtcGxlU2V0VHlwZToyMTk4OA==",
"U2FtcGxlU2V0VHlwZToyMTk4OQ==", "U2FtcGxlU2V0VHlwZToyMTk5MA==")
get_biofeature_ranking(samplesetNames = my_ss, top_n = 10,
normalization = "tpm", useIds = TRUE)
}