Define a subset of the ToxCast database for relevance to toxEval analyses.
Subsetting is done based upon methods defined by
doi:10.1021/acs.est.7b01613
Blackwell et al., 2017.
Specifically, this function removes endPoints that are ATG sources with
signal loss, and NVS with signal gain (basically: some assay/signal combinations
are removed because they target non-specific endpoints). Also, this function adds additional
categories to intended_target_family and intended_target_family_sub as
described in the paper linked above.
Usage
clean_endPoint_info(end_point_info)
Arguments
- end_point_info
Data frame Endpoint information from ToxCast.
Value
The returned data frame is based on end_point_info, but with some endPoints
filtered out and some additional categories in intended_target_family and
intended_target_family_sub. The names in intended_target_family
are revised to look more appealing in graphs and tables.
Examples
end_point_info <- end_point_info
nrow(end_point_info)
#> [1] 2319
cleaned_ep <- clean_endPoint_info(end_point_info)
nrow(cleaned_ep)
#> [1] 1929
