pre_combine_ion_modes: Combines Peak.lists Simply
In USEPA/LUMA: LCMS-Based Untargeted Metabolomics Assistant

Description Usage Arguments Value Examples

Combines Peak.lists from both ionization modes (positive and negative) for a first look at class separations, e.g. with PCA.

1	pre_combine_ion_modes(Peak.list = NULL, tbl.id, ...)

`Peak.list`	a named list of data frames (one per ionization mode) containing intensity matrices across all study samples and Pooled QCs. Names must be `c("Positive","Negative")`. Alternatively may use existing database connections by setting to NULL and specifying database parameters with ...
`tbl.id`	character vector of table names to draw from database. First value should be table name for positive mode, second should be table name for negative mode. Default is NULL
`...`	arguments to pass to database functions

NULL testing

library(LUMA)
if(require(lcmsfishdata, quietly = TRUE)) {

  Peak.list <- list(Positive = lcmsfishdata::Peaklist_Pos[["From_CAMERA"]],
                    Negative = lcmsfishdata::Peaklist_Neg[["From_CAMERA"]])
  test <- pre_combine_ion_modes(Peak.list = Peak.list)
  nrow(test) #Combined features from simply combining Peaklists
  sum(sapply(Peak.list, nrow)) #Doesn't remove any ion mode duplicates
}