ECOTOXr
ECOTOXr can be used to explore and analyse data from the US EPA ECOTOX database. More
specifically you can:
ECOTOXr?The ECOTOXr package allows you to search and extract
data from the ECOTOXicological
Knowledgebase and import it directly into R. This will
allow you to formalize and document the search- and extract-procedures
in R code. This makes it easier to share and reproduce such
procedures and its results. As illustrated in the graphical abstract
below. Moreover, you can directly apply any statistical analysis offered
in R.
Get CRAN version
install.packages("ECOTOXr")Get development version from r-universe
install.packages("ECOTOXr", repos = c("https://pepijn-devries.r-universe.dev", "https://cloud.r-project.org"))Although ECOTOXr has experimental features to search the
online database. The package will reach its full potential when you
build a copy of the database on your local machine.
Download and build a local copy of the latest ASCII export of the US EPA ECOTOX database
download_ecotox_data()Once built, you can search the local database for species and
substances using different strategies. You can use the build-in search
function of this package, or you can write custom queries using either
the simple query language (SQL) or dplyr verbs. More
details in the following vignettes:
vignette("searching-ecotox") and
vignette("ecotox-schema").
It is the end-users own responsibility to check the quality of collected data, using the original referenced source in order to evaluate its fitness for use, see also: https://cfpub.epa.gov/ecotox/help.cfm#info-limitations.
Note that the package maintainer is not affiliated with the US EPA, this package is therefore not official US EPA software.