Check Hierarchy Consistency

Validates that flat taxonomic columns match the hierarchy defined by id_parent. Returns taxa where the flat columns don't match their parent entries.

Usage

check_hierarchy_consistency(con = NULL, fix = FALSE, limit = 100)

Arguments

con

Database connection to taxa database

fix

Logical, if TRUE attempts to fix inconsistencies (default FALSE)

limit

Integer, max number of inconsistencies to return (default 100)

Value

Data frame with inconsistent taxa, or NULL if all consistent

Examples

if (FALSE) { # \dontrun{
con <- call.mydb.taxa()

# Check for inconsistencies
issues <- check_hierarchy_consistency(con)

# Fix inconsistencies automatically
check_hierarchy_consistency(con, fix = TRUE)
} # }