Convert METASPACE Images to Feature Matrix — metaspace_to_feature_matrix • SpaMTP

Transforms the list of 2D ion image matrices from get_metaspace into a single matrix suitable for spatial analysis packages.

Usage

metaspace_to_feature_matrix(metaspace_data, transform = FALSE, verbose = TRUE)

Arguments

metaspace_data: A list object returned by get_metaspace.
transform: Logical. If TRUE, transposes each image matrix before flattening (e.g., to align coordinate systems) (default = FALSE).
verbose: Boolean indicating whether to show the message. If TRUE the message will be show, else the message will be suppressed (default = TRUE).

Value

A numeric matrix where rows are molecular features (m/z) and columns are spatial pixels (named 'x_y').

Examples

# metaspace_to_feature_matrix(mtx, transform = TRUE)