combine_classification_tables()

combine_classification_tables

R Documentation

Combine automatic and auxiliary classification tables

Description

Merges the automatically generated classification table with a manually curated auxiliary table. When the same ‘sel_name’ entry exists in both tables the auxiliary (manual) row takes priority, overriding the automatic classification entirely.

Usage

combine_classification_tables(
  data_classification_table,
  data_aux_classification_table
)

Arguments

data_classification_table

A data frame produced by ‘make_classification_table()’ with columns ‘sel_name’, ‘kingdom’, ‘phylum’, ‘class’, ‘order’, ‘family’, ‘genus’, and ‘species’.

data_aux_classification_table

A data frame produced by ‘get_aux_classification_table()’ with columns ‘sel_name’, ‘kingdom’, ‘phylum’, ‘class’, ‘order’, ‘family’, ‘genus’, and ‘species’. May be an empty tibble (zero rows) when no manual overrides exist.

Details

Binding is performed by placing auxiliary rows before automatic rows and then retaining the first occurrence of each ‘sel_name’ via ‘dplyr::distinct()’. This guarantees that manual classifications always win regardless of their relative completeness.

Value

A tibble with columns ‘sel_name’, ‘kingdom’, ‘phylum’, ‘class’, ‘order’, ‘family’, ‘genus’, and ‘species’ containing all unique taxa from both inputs. Manual entries override automatic ones on ‘sel_name’ collision. Only columns present in both inputs are retained (intersection).