Package index • ECOTOXr

Building and maintenance

Functions for building and maintaining the local ECOTOX database

build_ecotox_sqlite() stable: Build an SQLite database from zip archived tables downloaded from EPA website
check_ecotox_build() stable: Check the locally build database for validity
check_ecotox_version() stable: Check if the locally build database is up to date
download_ecotox_data() stable: Download and extract ECOTOX database files and compose database
get_ecotox_url() stable: Get ECOTOX download URL from EPA website

Functions accessing and querying the local ECOTOX database

check_ecotox_availability() stable: Check whether a ECOTOX database exists locally
check_ecotox_build() stable: Check the locally build database for validity
check_ecotox_version() stable: Check if the locally build database is up to date
cite_ecotox() stable: Cite the downloaded copy of the ECOTOX database
dbConnectEcotox() dbDisconnectEcotox() stable: Open or close a connection to the local ECOTOX database
get_ecotox_info() stable: Get information on the local ECOTOX database when available
get_ecotox_sqlite_file() get_ecotox_path() stable: The local path to the ECOTOX database (directory or sqlite file)
list_ecotox_fields() stable: List the field names that are available from the ECOTOX database
migrate_ecotox_path(): Temporary function to switch to new ECOTOX path
search_ecotox() search_ecotox_lazy() search_query_ecotox() stable: Search and retrieve toxicity records from the database

Functions for searching online databases

websearch_ecotox() list_ecotox_web_fields() experimental: Search and retrieve toxicity records from the online database
websearch_comptox() experimental: Search and retrieve substance information from https://comptox.epa.gov/dashboard

Functions for sanitising data collected from local ECOTOX database

as_date_ecotox() experimental: Values represented by ECOTOX character to dates
as_numeric_ecotox() experimental: Values represented by ECOTOX character to numeric
as_unit_ecotox() experimental: Text from the ECOTOX database to mixed_units
mixed_to_single_unit() experimental: Convert mixed units to a specific unit
process_ecotox_dates() experimental: Process ECOTOX search results by converting character to dates where relevant
process_ecotox_numerics() experimental: Process ECOTOX search results by converting character to numeric where relevant
process_ecotox_units() experimental: Process ECOTOX search results by converting character to units where relevant

Functions for handling CAS registry numbers

cas() is.cas() as.cas() `[[`(<cas>) `[`(<cas>) `[[<-`(<cas>) `[<-`(<cas>) format(<cas>) as.character(<cas>) show.cas() print(<cas>) as.list(<cas>) as.double(<cas>) as.integer(<cas>) c(<cas>) as.data.frame(<cas>) stable: Functions for handling chemical abstract service (CAS) registry numbers