├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ ├── R-CMD-check.yaml │ ├── pkgdown.yaml │ └── test-coverage.yaml ├── .gitignore ├── .gitlab-ci.yml ├── .lintr ├── CONDUCT.md ├── CRAN_reminders.txt ├── DESCRIPTION ├── DISCLAIMER.md ├── LICENSE.md ├── LICENSE.note ├── NAMESPACE ├── NEWS ├── R ├── clean_endPoint_info.R ├── create_toxEval.R ├── endpoint_hits.R ├── explore_endpoints.R ├── filter_endPoint_info.R ├── get_ACC.R ├── get_chemical_summary.R ├── hits_by_groupings.R ├── hits_summary.R ├── makeMap.R ├── plot_chemical_boxplots.R ├── plot_group_boxplots.R ├── plot_heat_chemical.R ├── plot_tox_endpoints.R ├── plot_tox_endpoints2.R ├── plot_tox_stacks.R ├── rank_sites.R ├── side_by_side.R ├── sysdata.rda └── toxEval.R ├── README.Rmd ├── README.md ├── _pkgdown.yml ├── code.json ├── codecov.yml ├── deploy_simple.R ├── docker └── Dockerfile ├── hexSticker.R ├── inst ├── CITATION ├── extdata │ ├── OWC_data_fromSup.xlsx │ └── toxEval35_endpoint_summary_DLV.xlsx └── shiny │ ├── benchmarks.R │ ├── boxPlot.R │ ├── endpointGraph.R │ ├── favicon.ico │ ├── getData.R │ ├── heatMap.R │ ├── hitTable.R │ ├── hitsTableEP.R │ ├── manifest.json │ ├── mapStuff.R │ ├── server.R │ ├── stackPlot.R │ ├── tableGroupSumm.R │ ├── tableSum.R │ ├── ui.R │ ├── updateUI.R │ ├── usgs.png │ └── www │ ├── custom.css │ ├── footer.html │ └── logo.png ├── man ├── ToxCast_ACC.Rd ├── clean_endPoint_info.Rd ├── createLink.Rd ├── create_toxEval.Rd ├── end_point_info.Rd ├── endpoint_hits_DT.Rd ├── explore_endpoints.Rd ├── figures │ ├── README-unnamed-chunk-7-1.png │ ├── README-unnamed-chunk-7-2.png │ ├── README-unnamed-chunk-7-3.png │ ├── app.gif │ ├── logo.png │ └── toxEval.png ├── filter_groups.Rd ├── flags.Rd ├── get_ACC.Rd ├── get_chemical_summary.Rd ├── get_concentration_summary.Rd ├── graph_data_prep.Rd ├── helperToxEval.Rd ├── hits_by_groupings_DT.Rd ├── hits_summary_DT.Rd ├── make_tox_map.Rd ├── plot_tox_boxplots.Rd ├── plot_tox_endpoints.Rd ├── plot_tox_endpoints2.Rd ├── plot_tox_heatmap.Rd ├── plot_tox_stacks.Rd ├── rank_sites_DT.Rd ├── remove_flags.Rd ├── summary.toxEval.Rd ├── toxEval-package.Rd └── tox_chemicals.Rd ├── pkgdown ├── assets │ ├── fonts │ │ ├── FontAwesome.otf │ │ ├── fontawesome-webfont.eot │ │ ├── fontawesome-webfont.svg │ │ ├── fontawesome-webfont.ttf │ │ ├── fontawesome-webfont.woff │ │ └── fontawesome-webfont.woff2 │ ├── images │ │ └── logo.png │ └── logo.png ├── extra.css ├── favicon │ ├── apple-touch-icon-120x120.png │ ├── apple-touch-icon-152x152.png │ ├── apple-touch-icon-180x180.png │ ├── apple-touch-icon-60x60.png │ ├── apple-touch-icon-76x76.png │ ├── apple-touch-icon.png │ ├── favicon-16x16.png │ ├── favicon-32x32.png │ ├── favicon.ico │ └── logo.png ├── logo.png └── templates │ ├── footer.html │ └── header.html ├── tests ├── testthat.R └── testthat │ ├── test_data.R │ ├── test_utils.R │ ├── tests_endpoint.R │ └── tests_summary.R └── vignettes ├── Chemical_names.Rmd ├── Contributing.Rmd ├── Introduction.Rmd ├── OWC_custom_bench.xlsx ├── PrepareData.Rmd ├── Wide data example.xlsx ├── allActive.png ├── annotations.png ├── assays.png ├── atrazineDose.png ├── back_to_main.png ├── basicWorkflow.Rmd ├── bench_tab.png ├── benchmarks.Rmd ├── bibliography.Rmd ├── check.png ├── commit1.png ├── commit2.png ├── create_merge.png ├── data.png ├── delete_branch.png ├── doc_all.png ├── dose_curves.Rmd ├── flags.png ├── getCurve.png ├── git_login.png ├── git_repository.png ├── group.png ├── https_clone.png ├── install.png ├── install_error.png ├── login.png ├── logo.png ├── main.png ├── merge_request.png ├── messyData.png ├── new_branch.png ├── new_project.png ├── no_manual.png ├── pat.png ├── pipeline.png ├── pivot.Rmd ├── pull.png ├── roxygen.png ├── save_pat.png ├── shinyApp.Rmd ├── sidebar.png ├── sites.png ├── startSearch.png ├── tabs.png ├── test.png ├── thres.png ├── toxeval.bib ├── update.png ├── update_data.Rmd └── wq_benchmarks.csv /.Rbuildignore: 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