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USEPA / CompTox-ToxCast-tcpl

US EPA's Toxicity Forecaster (ToxCast) Pipeline. More information on the ToxCast program available here: https://www.epa.gov/comptox-tools/toxicity-forecasting-toxcast
https://cran.r-project.org/package=tcpl
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TOX-485 Chemical not populated in cytotox table even though there is data at mc4 #48

Closed brown-jason closed 1 month ago

brown-jason commented 1 year ago

Cytotox table should populate for every chemical that has data in invitrodb even if there are no datapoints in burst assays (should default to a value). Need to investigate why galaxolide was not populated in the cytotox table:

use prod_internal_invitrodb_v3_5; select from chemical where dsstox_substance_id = "DTXSID8027373"; select from cytotox where chid = 27373; select * from mc4 where spid in (select spid from sample where chid = 2737

madison-feshuk commented 1 month ago

Suggest removing the gnls filter for tcplCytoPt https://github.com/USEPA/CompTox-ToxCast-tcpl/blob/dev/R/tcplCytoPt.R#L168. It was added prior to the new bounds on gnls and prior to bidirectional fitting so now it doesn't seem appropriate @kpaulfriedman