tidy_metadata: Tidying up of metadata. Samples belonging to undesidered...

In multiDEGGs: Multi-Omic Differentially Expressed Gene-Gene Pairs

Tidying up of metadata. Samples belonging to undesidered categories (if specified) will be removed as well as categories with less than five samples, and NAs.

Description

Tidying up of metadata. Samples belonging to undesidered categories (if specified) will be removed as well as categories with less than five samples, and NAs.

Usage

tidy_metadata(
  category_subset = NULL,
  metadata,
  category_variable = NULL,
  verbose = FALSE
)

Arguments

category_subset	optional character vector indicating which categories are used for comparison. If not specified, all categories in category_variable will be used.
metadata	a named vector, matrix, or data.frame containing sample annotations or categories. If matrix or data.frame, each row should correspond to a sample, with columns representing different sample characteristics (e.g., treatment group, condition, time point). The colname of the sample characteristic to be used for differential analysis must be specified in category_variable. Rownames must match the sample IDs used in assayData. If named vector, each element must correspond to a sample characteristic to be used for differential analysis, and names must match sample IDs used in the colnames of assayData. Continuous variables are not allowed.
category_variable	column name in metadata (if data.frame or matrix) or NULL if metadata is already a named vector containing category information.
verbose	Logical. Whether to print detailed output messages during processing. Default is FALSE.

Value

a tidy named factor vector of sample annotations.

multiDEGGs documentation built on June 8, 2025, 1:19 p.m.