Finds metabolites that display strong spatial patterns using MoransI. Each m/z value is ranked by MoransI score and the results are stored in the SpaMTP Seurat Object feature metadata.
Usage
FindSpatiallyVariableMetabolites(
object,
assay = "SPM",
slot = "counts",
image = "slice1",
nfeatures = 2000,
verbose = TRUE
)Arguments
- object
SpaMTP Seurat class object contating the intensity values for each m/z
- assay
Character string indicating which Seurat object assay to pull data form (default = "SPM").
- slot
Character string indicating the assay slot to use to pull expression values form (default = "counts").
- image
Character string defining the image to extract the tissue coordinates from (defualt = "slice1").
- nfeatures
Numeric values defining the top number of features to mark as the top spatially variable (default = 2000).
- verbose
Boolean indicating whether to show the message. If TRUE the message will be show, else the message will be suppressed (default = TRUE).