Adds custom metabolite annotations to respective m/z values (ideal for specific matrices such as FMP10).
Usage
AddCustomMZAnnotations(
data,
annotations,
assay = "Spatial",
return.only.annotated = FALSE,
mass.threshold = 0.05,
annotation.column = "all_IsomerNames"
)Arguments
- data
SpaMTP Seurat object containing m/z intensity values.
- annotations
data.frame containing two columns named 'annotation' and 'mass'. These columns should contain the custom metabolite annotation and the relative m/z mass respectively.
- assay
Character string defining the Seurat object assay to store the respective annotations in the feature meta.data dataframe (default = "Spatial").
- return.only.annotated
Boolean defining whether to return a SpaMTP Seurat object containing only successfully annotated m/z values (default = FALSE).
- mass.threshold
Numeric value defining the acceptable threshold (plus-minus) between the custom annotations and the actual m/z values contained within the SpaMTP object (default = 0.05).
- annotation.column
Character string defining the feature meta.data column name that will contain the assigned annotations (default = "all_IsomerNames").