Evaluate reactions from observed genomic markers

A component is supported by any accepted marker; an enzyme system requires every component; and a reaction requires any one complete enzyme system.

Usage

evaluate_reactions(annotation_table, namespace = NULL, db = NULL)

Arguments

annotation_table

A data frame with `namespace` and `accession` columns and an optional `gene_id` column, or a character vector of marker accessions.

namespace

Namespace for a character-vector input. If omitted, KO, EC, Pfam, TIGRFAM, NCBIfam and CAZy accessions are inferred where possible.

db

Optional open gifter database connection.

Value

A detailed result containing reaction, system, component, and marker evidence tibbles.