mx_dataset: Generates mx_dataset

In mxnorm: Apply Normalization Methods to Multiplexed Images

Generates mx_dataset

Description

Takes in data from data.frame of cell-level multiplexed data to create a mx_dataset S3 object.

Usage

mx_dataset(data, slide_id, image_id, marker_cols, metadata_cols = NULL)

Arguments

data	multiplexed data to normalize. Data assumed to be a data.frame with cell-level data.
slide_id	String slide identifier of input data. This must be a column in the data data.frame.
image_id	String image identifier of input data. This must be a column in the data data.frame.
marker_cols	vector of column name(s) in data corresponding to marker values.
metadata_cols	other identifiers of the input data (default=NULL). This must be a vector of column name(s) in the data data.frame.

Value

data.frame object in the mx_dataset format with attribute for input type

Examples

mx_data = mx_dataset(mxnorm::mx_sample, "slide_id", "image_id",
  c("marker1_vals","marker2_vals","marker3_vals"),
  c("metadata1_vals"))

mxnorm documentation built on Sept. 9, 2025, 5:56 p.m.