Package: tcpl 3.2.0.9000
Jason Brown
tcpl: ToxCast Data Analysis Pipeline
The ToxCast Data Analysis Pipeline ('tcpl') is an R package that manages, curve-fits, plots, and stores ToxCast data to populate its linked MySQL database, 'invitrodb'. The package was developed for the chemical screening data curated by the US EPA's Toxicity Forecaster (ToxCast) program, but 'tcpl' can be used to support diverse chemical screening efforts.
Authors:
tcpl_3.2.0.9000.tar.gz
tcpl_3.2.0.9000.zip(r-4.5)tcpl_3.2.0.9000.zip(r-4.4)tcpl_3.2.0.9000.zip(r-4.3)
tcpl_3.2.0.9000.tgz(r-4.4-any)tcpl_3.2.0.9000.tgz(r-4.3-any)
tcpl_3.2.0.9000.tar.gz(r-4.5-noble)tcpl_3.2.0.9000.tar.gz(r-4.4-noble)
tcpl_3.2.0.9000.tgz(r-4.4-emscripten)tcpl_3.2.0.9000.tgz(r-4.3-emscripten)
tcpl.pdf |tcpl.html✨
tcpl/json (API)
NEWS
| # Install 'tcpl' in R: |
| install.packages('tcpl', repos = c('https://usepa.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/usepa/comptox-toxcast-tcpl/issues
- invitrodb_dd - Short descriptions of fields for different tables are stored in a data dictionary.
- load_data_columns - Lists of column names returned from tcplLoadData invitrodb v4.1 (same as CCTE Bioactivity API version).
- mc_test - List of lists containing queries sent to tcplQuery associated with each test case. Each list also contains the associated ids with each case. Only meant to be used with automated testing with mocking for mc data.
- mc_vignette - List with multi-concentration data for the vignette
- mcdat - A subset of ToxCast data showing changes in the activity of the intracellular estrogen receptor.
- mthd_list_defaults - Lists of data frames returned from tcplMthdList invitrodb v4.2
- sc_test - List of lists containing queries sent to tcplQuery associated with each test case. Each list also contains the associated ids with each case. Only meant to be used with automated testing with mocking for sc data.
- sc_vignette - List with single-concentration data for the vignette
- scdat - A subset of ToxCast data showing changes in transcription factor activity for multiple targets.
- test_api - List containing ids used for different automated tests of tcpl integration with the CTX APIs, randomly selected from what is available via API.
Last updated 13 days agofrom:1c49765e3d. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 06 2024 |
| R-4.5-win | NOTE | Nov 06 2024 |
| R-4.5-linux | NOTE | Nov 06 2024 |
| R-4.4-win | NOTE | Nov 06 2024 |
| R-4.4-mac | NOTE | Nov 06 2024 |
| R-4.3-win | NOTE | Nov 06 2024 |
| R-4.3-mac | NOTE | Nov 06 2024 |
Exports:lulwsink.resettcplAddModeltcplAICProbtcplCode2CASNtcplConftcplConfDefaulttcplConfListtcplConfLoadtcplConfResettcplConfSavetcplCytoPttcpldbStatstcplDefinetcplFittcplGetAeidtcplHillACXXtcplHillConctcplHillValtcplListFldstcplLoadAcidtcplLoadAeidtcplLoadAidtcplLoadAsidtcplLoadChemtcplLoadChemListtcplLoadConcUnittcplLoadDatatcplLoadUnittcplLvlCounttcplMakeAeidMultiPltstcplMakeAeidPltstcplMakeChidMultiPltstcplMthdAssigntcplMthdCleartcplMthdListtcplMthdLoadtcplMultiplottcplObjCnsttcplObjGnlstcplObjHilltcplPlottcplPlotFitctcplPlotFitstcplPlotLoadDatatcplPlotM4IDtcplPlotPlatetcplPrepOtpttcplQuerytcplQueryAPItcplRegistertcplRuntcplSendQuerytcplSubsetChidtcplUpdatetcplVarMattcplWriteLvl0
Dependencies:askpassbase64encbitbit64blobbslibcachemchronclicolorspacecpp11crosstalkctxRcurldata.tableDBIdigestdplyrevaluatefansifarverfastmapfontawesomefsgenericsggplot2gluegridExtragsubfngtablehighrhmshtmltoolshtmlwidgetshttrisobandjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimemunsellnlmenumDerivopensslpillarpkgconfigplogrplotlyplyrpromisesprotopurrrR6rappdirsRColorBrewerRcppreshape2rlangRMariaDBrmarkdownRSQLitesassscalessqldfstringistringrsystcplfit2tibbletidyrtidyselecttimechangetinytextriebeardurltoolsutf8vctrsviridisLitewithrxfunyaml
