Harmonize Dataset — harmonize • foundrHarmony

Harmonize Dataset

Usage

harmonize(
  dataset,
  links,
  userHarmony,
  ...,
  normalize = TRUE,
  condition_name = "condition",
  minstrains = nstrains - 2,
  drop_na_pvalue = TRUE
)

Arguments

dataset: name of dataset
links: data frame with `shortname`, `address`, `longname`
userHarmony: function provided by user
...: additional optional parameters to `userHarmony()`
normalize: apply `normalscores` if `TRUE`
condition_name: name of `condition` column if present.
minstrains: minimum number of `strains` allowed per `trait`
drop_na_pvalue: drop traits with any missing pvalues if `TRUE`; if `FALSE` return `traitStats` object only

Value

side action to save RDS files locally