Files in mcneilco/racas
R Package for ACAS
.Rbuildignore
.dockerignore
.github/workflows/docker-image.yml
.github/workflows/trigger-tag.yml
.gitignore
DESCRIPTION
Dockerfile
Dockerfile.repo
LICENSE
NAMESPACE
NEWS.md
R/JSON_library.R
R/api.R
R/applicationSettings.R
R/batchAnnotation.R
R/campaign.R
R/containers.R
R/createHtmlSummary.R
R/createNewACASExperiment.R
R/directDatabaseSave.R
R/dose_response.R
R/dose_response_api.R
R/entityDefinitions.R
R/entityMeta.R
R/errorLogging.R
R/fileRead.R
R/hello.R
R/installation.R
R/logger.R
R/longFormatSave.R
R/messenger.R
R/model_fit.R
R/objectHelper.R
R/onLoad.R
R/pingPong.R
R/preferredBatchCode.R
R/query.R
R/rendering.R
R/sel.R
R/session.R
R/summaryStatistics.R
R/testing.R
R/tsvSave.R
R/updateExperimentMetadata.R
R/utilities.R
README.md
data/affinityBindingData.rda
data/analysisGroupValues.rda
data/curveData.rda
data/example-ec50-fitData-fitted.rda
data/example-ec50-fitData.rda
data/exampleFitData.rda
data/ivPKCurveData.rda
data/kiData.rda
data/overlayIVPKCurveData.rda
data/poIVPKCurveData.rda
data/poPKCurveData.rda
data/pointData.rda
inst/COPYRIGHT.txt
inst/PrepareConfigFiles.coffee
inst/bin/acas.sh
inst/bin/readproperties.awk
inst/bin/setenv.sh
inst/conf/default-ec50-fitSettings.json
inst/conf/default-ic50-fitSettings.json
inst/conf/default-ki-fitSettings.json
inst/conf/default-km-fitSettings.json
inst/conf/default-substrateInhibition-fitSettings.json
inst/conf/definition-kifit.json
inst/conf/definition-ll4.json
inst/conf/definition-ll4IC50.json
inst/conf/definition-mm2.json
inst/conf/definition-scatter.json
inst/conf/definition-substrateInhibition.json
inst/docs/Example-Dose-Response-SEL-KD.xlsx
inst/docs/Example-Dose-Response-SEL.xlsx
inst/docs/example-dose-response-ec50-explicit.xlsx
inst/docs/example-simple-fitsettings-ki.json
inst/docs/example-simple-fitsettings-ll4.json
inst/docs/example-simple-fitsettings-mm2.json
inst/docs/scratch.R
inst/docs/scratchPrivate.R
inst/docs/value_type_and_kinds.csv
inst/rmd/doseResponseCurveValidation.rmd
inst/rmd/equations/ki.txt
inst/rmd/equations/latex-equations.txt
inst/rmd/equations/ll4.txt
inst/rmd/equations/ll4IC50.txt
inst/rmd/equations/mm2.txt
inst/rmd/equations/substrateInhibition.txt
inst/rmd/fitDataToResponse_acas.html
inst/rmd/fitDataToResponse_acas.rmd
inst/rmd/fitDataToResponse_error.rmd
inst/rmd/racas_container.css
inst/rmd/summaryStatisticsGraphs.rmd
inst/rmd/summaryStatisticsHome.rmd
inst/rmd/summaryStats.css
inst/tests/data/UTF-16LE-test.txt
inst/tests/data/UTF-16LE-test2.txt
inst/tests/data/addFileLinkOutput_normal.Rda
inst/tests/data/deleteLinkFileInput_experiment.Rda
inst/tests/data/doseResponse/acceptedresults/apply_inactive_rules_inactive.rda
inst/tests/data/doseResponse/acceptedresults/apply_inactive_rules_potent.rda
inst/tests/data/doseResponse/acceptedresults/apply_parameter_rules_goodness_of_fits.rda
inst/tests/data/doseResponse/acceptedresults/apply_parameter_rules_limits.rda
inst/tests/data/doseResponse/acceptedresults/biphasic.rda
inst/tests/data/doseResponse/acceptedresults/capture_output.rda
inst/tests/data/doseResponse/acceptedresults/categorize_fit_data.rda
inst/tests/data/doseResponse/acceptedresults/data.table_to_html_table.rda
inst/tests/data/doseResponse/acceptedresults/doseResponse_ll4.rda
inst/tests/data/doseResponse/acceptedresults/dose_response_fit.rda
inst/tests/data/doseResponse/acceptedresults/dose_response_ll4.rda
inst/tests/data/doseResponse/acceptedresults/fit_data_to_acas_experiment_response.rda
inst/tests/data/doseResponse/acceptedresults/flatten_list_to_data.table.rda
inst/tests/data/doseResponse/acceptedresults/get_default_fit_settings_ll4.rda
inst/tests/data/doseResponse/acceptedresults/get_drc_model.rda
inst/tests/data/doseResponse/acceptedresults/get_fit_stats_drc_object.rda
inst/tests/data/doseResponse/acceptedresults/get_goodness_of_fit_parameters_drc_object.rda
inst/tests/data/doseResponse/acceptedresults/get_parameters_drc_object.rda
inst/tests/data/doseResponse/acceptedresults/get_plot_window.rda
inst/tests/data/doseResponse/acceptedresults/get_point_stats.rda
inst/tests/data/doseResponse/acceptedresults/get_reported_parameters.rda
inst/tests/data/doseResponse/acceptedresults/knit2html_bug_fix.rda
inst/tests/data/doseResponse/acceptedresults/simple_to_advanced_fit_settings_ll4.rda
inst/tests/data/doseResponse/conf/default-ec50-fitSettings.json
inst/tests/data/doseResponse/conf/default-kd-fitSettings.json
inst/tests/data/doseResponse/conf/default-ki-fitSettings.json
inst/tests/data/doseResponse/conf/default_fitSettings_ll4.json
inst/tests/data/doseResponse/conf/default_fitSettings_mm2.json
inst/tests/data/doseResponse/conf/example_simple_fitsettings_ll4.json
inst/tests/data/doseResponse/conf/example_simple_fitsettings_mm2.json
inst/tests/data/doseResponse/data/fitData_ll4.rda
inst/tests/data/doseResponse/data/fitData_ll4_fitted.rda
inst/tests/data/doseResponse/docs/Example-Dose-Response-SEL-LL4.xlsx
inst/tests/data/flattenDeepEntityInput_normal.Rda
inst/tests/data/flattenDeepEntityOutput_normal.Rda
inst/tests/data/htmlSummaryNormal_output.Rda
inst/tests/data/linkOldContainersOutput_hasMix.Rda
inst/tests/data/linkOldContainersOutput_hasMixPref.Rda
inst/tests/data/linkOldContainersOutput_hasNew.Rda
inst/tests/data/linkOldContainersOutput_hasOld.Rda
inst/tests/data/linkOldContainersOutput_nonPref.Rda
inst/tests/data/linkOldContainersOutput_nullPrefix.Rda
inst/tests/data/linkOldContainers_normal.Rda
inst/tests/data/meltBatchCodesOutput_normal.Rda
inst/tests/data/saveAnalysisResults_output.Rda
inst/tests/test-getSSLString.R
inst/tests/test_JSON_library.R
inst/tests/test_batchAnnotation.R
inst/tests/test_createHtmlSummary.R
inst/tests/test_doseResponse.R
inst/tests/test_flattenDeepEntity.R
inst/tests/test_longFormatSave.R
inst/tests/test_messenger.R
inst/tests/test_query.R
man/Messenger.Rd
man/ModelFit-class.Rd
man/acasEntityHierarchy.Rd
man/addError.Rd
man/addFileLink.Rd
man/analysis_group_save_from_tsv.Rd
man/api_createProtocol.Rd
man/api_doseResponse_experiment.Rd
man/api_doseResponse_fitData_to_curveDetail.Rd
man/appendCodeNames.Rd
man/appendToContainerName.Rd
man/applicationSettings.Rd
man/changeEntityMode.Rd
man/checkExistence.Rd
man/checkValueKinds.Rd
man/convertSELExperimentMetaDataToSEL.Rd
man/createCodeTablesFromJsonArray.Rd
man/createHtmlSummary.Rd
man/createLogger.Rd
man/createNamedExperiment.Rd
man/createSELCalculatedResults.Rd
man/createSELExperimentMetaData.Rd
man/createSELFile.Rd
man/createSELRawResults.Rd
man/createStateValue.Rd
man/createSubjectContainerInteraction.Rd
man/createTag.Rd
man/dbWriteTableMatchCol.Rd
man/deleteAnalysisGroupsByExperiment.Rd
man/deleteLinkFile.Rd
man/dose_response.Rd
man/dose_response_session.Rd
man/fit_data_to_acas_experiment_response.Rd
man/flattenDeepEntity.Rd
man/flattenEntity.Rd
man/flattenLabel.Rd
man/flattenLabels.Rd
man/flattenState.Rd
man/flattenValue.Rd
man/formatEntityAsTsvAndUpload.Rd
man/getAcasFileLink.Rd
man/getAllValueKinds.Rd
man/getAllValueTypes.Rd
man/getCompoundName.Rd
man/getConfiguredEntityTypes.Rd
man/getContainerByLabelText.Rd
man/getCurveData.Rd
man/getDDictKinds.Rd
man/getDDictValuesByTypeKindFormat.Rd
man/getEntity.Rd
man/getEntityById.Rd
man/getErrorText.Rd
man/getExperimentById.Rd
man/getExperimentStatesByTypeAndKind.Rd
man/getExperimentValuesByTypeAndKind.Rd
man/getExperimentsByName.Rd
man/getFileEncoding.Rd
man/getOrCreateDDictKinds.Rd
man/getOrCreateDDictTypes.Rd
man/getOrCreateEntityState.Rd
man/getOrCreateExperimentState.Rd
man/getPreferredId.Rd
man/getPreferredId2.Rd
man/getPreferredIdInternal.Rd
man/getPreferredLabelText.Rd
man/getPreferredName.Rd
man/getProtocolById.Rd
man/getProtocolsByName.Rd
man/getSSLString.Rd
man/getSection.Rd
man/getStatesByTypeAndKind.Rd
man/getURLcheckStatus.Rd
man/getUploadedFilePath.Rd
man/getValuesByTypeAndKind.Rd
man/getWarningText.Rd
man/get_or_create_value_kinds.Rd
man/get_text_file_contents.Rd
man/hello.Rd
man/interpretJSONBoolean.Rd
man/linkOldContainers.Rd
man/load_value_type_and_kinds.Rd
man/logger.Rd
man/meltBatchCodes.Rd
man/meltBatchCodes2.Rd
man/meltConcentrations.Rd
man/meltConcentrations2.Rd
man/meltTimes.Rd
man/meltTimes2.Rd
man/meltWideData.Rd
man/modules.Rd
man/moveFileToExperimentFolder.Rd
man/moveFileToFileServer.Rd
man/naIfNull.Rd
man/parentAcasEntity.Rd
man/pickBestLabel.Rd
man/pickBestName.Rd
man/pingPong.Rd
man/plotCurve.Rd
man/prepareTableForDD.Rd
man/query.Rd
man/query_replace_string_with_values.Rd
man/readConfigFile.Rd
man/readExcelOrCsv.Rd
man/readTsvDataFileDD.Rd
man/saveAcasEntities.Rd
man/saveAcasFile.Rd
man/saveAcasFileToExperiment.Rd
man/saveAllViaDirectDatabase.Rd
man/saveAllViaTsv.Rd
man/saveAnalysisResults.Rd
man/saveContainer.Rd
man/saveDataDirectDatabase.Rd
man/saveEntitiesDD.Rd
man/saveInputParameters.Rd
man/saveLabelsFromLongFormat.Rd
man/saveStatesFromLongFormat.Rd
man/saveTsvData.Rd
man/saveValueKinds.Rd
man/saveValuesDD.Rd
man/saveValuesFromLongFormat.Rd
man/setExperimentHtml.Rd
man/setExperimentStatus.Rd
man/simple_to_advanced_fit_settings.Rd
man/stopUser.Rd
man/tryCatch.W.E.Rd
man/tryCatchLog.Rd
man/tsv_url_to_data_table.Rd
man/updateOrCreateStateValue.Rd
man/updateValueByTypeAndKind.Rd
man/validate.Rd
man/validateSharedMetaData.Rd
man/validateValueKindsFromDataFrame.Rd
man/warnUser.Rd
tests/test-all.R
