Extract protein lists from the upset data

extract_protein_list() extracts the protein lists from the upset data. It creates a list with the proteins for each combination of diseases. It also creates a tibble with the proteins for each combination of diseases.

Usage

extract_protein_list(proteins, direction = NA_character_)

Arguments

proteins

A named list with the protein vector of each disease.

direction

The regulation direction to record in the up/down column, or NA when the features are not directional. Default is NA_character_.

Value

A list with the following elements:

• proteins_list: A list with the proteins for each combination of diseases.

• proteins_df: A tibble attributing each protein to the exact set of diseases it was found in.

Details

The combinations are derived from the protein lists directly rather than from an UpSetR membership matrix, which degenerates into a named vector as soon as a single disease is summarised.