Sums the intensity values of multiple m/z values into one

This function inputs any vector of m/z values and combines their intensity values per pixel. This 'binned' data is stored in the SpaMTP Object's @meta.data slot.

Usage

BinMetabolites(
  data,
  mzs,
  assay = "Spatial",
  slot = "data",
  bin_name = "Binned_Metabolites"
)

Arguments

data: SpaMTP Seurat class object containing m/z intensities.
mzs: Vector of m/z names to be binned together
assay: Character string indicating which Seurat object assay to pull data form (default = "Spatial").
slot: Character string indicating the assay slot to use to pull expression values form (default = "counts").
bin_name: Character string defining the name of the meta.data column that stores the data (default = "Binned_Metabolites").

Value

Binned intensity value stored in barcode meta.data slot

Examples

utils::str(formals(BinMetabolites))
#> Dotted pair list of 5
#>  $ data    : symbol 
#>  $ mzs     : symbol 
#>  $ assay   : chr "Spatial"
#>  $ slot    : chr "data"
#>  $ bin_name: chr "Binned_Metabolites"
# SpaMPT.obj <- BinMetabolites(SpaMPT.obj, mz = c('mz-740.471557617188','mz-784.528564453125','mz-897.603637695312'), bin_name = "Lipids")