process_fcm: process_fcm

In mxfda: A Functional Data Analysis Package for Spatial Single Cell Data

process_fcm

Description

Internal function called by run_fcm that transforms long format functional data for use in a linear or additive functional Cox model.

Usage

process_fcm(
  mxfundata,
  id,
  r = "r",
  value = "fundiff",
  analysis_vars,
  quantile_transform = FALSE,
  multilevel = FALSE
)

Arguments

mxfundata	Dataframe of spatial summary functions from multiplex imaging data, in long format. Can be estimated using the function extract_summary_functions or provided separately.
id	Character string, the name of the variable that identifies each unique subject.
r	Character string, the name of the variable that identifies the function domain (usually a radius for spatial summary functions). Default is "r".
value	Character string, the name of the variable that identifies the spatial summary function values. Default is "fundiff".
analysis_vars	Optional list of variables to be retained for downstream analysis.
quantile_transform	If TRUE, a quantile transformation is applied to the functional predictor before modeling

Value

A dataframe with matrix-valued covariates l_int, t_int, and func for use in a linear or additive functional Cox model.

Author(s)

Julia Wrobel [e-mail]

Alex Soupir [e-mail]

Examples

# simulate data
set.seed(1001)

mxfda documentation built on April 3, 2025, 10:25 p.m.