acasEntityHierarchy | The hierarcy of ACAS entities |
addError | Non-fatal error tracking |
addFileLink | Saves a file that will show up as a link in Seurat |
analysis_group_save_from_tsv | Save file paths using tsv loader |
api_createProtocol | Create acas protocol |
api_doseResponse_experiment | Fits experiment dose response data |
api_doseResponse_fitData_to_curveDetail | fitData object to json response |
appendCodeNames | Appends code names to supplied valueKinds |
appendToContainerName | Change container names |
applicationSettings | Configuration settings for the applicaiton |
changeEntityMode | Change mode ACAS entity |
checkExistence | Check for protocol or experiment existence |
checkValueKinds | Check valueKinds |
convertSELExperimentMetaDataToSEL | Converts an Experiment Meta Data data.frame to a pivoted... |
createCodeTablesFromJsonArray | createCodeTablesFromJsonArray |
createHtmlSummary | Create an HTML summary |
createLogger | Creates a new logger |
createNamedExperiment | Create experiment with name |
createSELCalculatedResults | Creates a data.frame that contains the elements of the... |
createSELExperimentMetaData | Creates a data.frame that contains the elements of the... |
createSELFile | Creates an SEL formatted file |
createSELRawResults | Creates a data.frame that contains the elements of the Raw... |
createStateValue | Creates a state value |
createSubjectContainerInteraction | create subject container interaction |
createTag | Creates a tag |
dbWriteTableMatchCol | Write table with matching columns names |
deleteAnalysisGroupsByExperiment | Delete analysis groups by experiment |
deleteLinkFile | Deletes a file that shows up as a link |
dose_response | Fit dose response data |
dose_response_session | Fit dose response data |
fit_data_to_acas_experiment_response | fitData object to json response |
flattenDeepEntity | Flattens Nested ACAS Entities |
flattenEntity | Flattens ACAS Entities |
flattenLabel | Flattens an lsLabel |
flattenLabels | Flattens a list of lsLabels |
flattenState | Flattens an lsState |
flattenValue | Flattens an lsValue |
formatEntityAsTsvAndUpload | Save data using tsv |
getAcasFileLink | Get url for ACAS file |
getAllValueKinds | valueKinds |
getAllValueTypes | valueTypes |
getCompoundName | Gets parts of batch code |
getConfiguredEntityTypes | Gets configured entity type |
getContainerByLabelText | Get Containers by label text |
getCurveData | Extract the parameters of a given set of curveids (of the... |
getDDictKinds | getDdictKinds |
getDDictValuesByTypeKindFormat | Get ddict values by type and kind |
getEntity | Retrieves a list of entities (experiments or prototocols) by... |
getEntityById | Gets an entity by id |
getErrorText | Get error text for users |
getExperimentById | Gets an experiment |
getExperimentsByName | Experiment search by name |
getExperimentStatesByTypeAndKind | Get Experiment States |
getExperimentValuesByTypeAndKind | Get Experiment Values |
getFileEncoding | Check file encoding |
getOrCreateDDictKinds | getOrCreateDDictKinds |
getOrCreateDDictTypes | getOrCreateDDictTypes |
getOrCreateEntityState | Gets a state |
getOrCreateExperimentState | Gets an experiment state |
get_or_create_value_kinds | Get Or Create Value Kind |
getPreferredId | Gets preferred ids |
getPreferredId2 | Gets preferred ids |
getPreferredIdInternal | Gets preferred ids |
getPreferredLabelText | Get preferred label text |
getPreferredName | Gets Entity Name |
getProtocolById | Gets a protocol |
getProtocolsByName | Protocol search by name |
getSection | Get dataframe sections |
getSSLString | Returns "http://" for blank, null, or FALSE inputs;... |
getStatesByTypeAndKind | Gets states from an entity |
get_text_file_contents | Get text file contents as character |
getUploadedFilePath | Returns file path for uploaded files |
getURLcheckStatus | Get URL and check status |
getValuesByTypeAndKind | Gets values from a state |
getWarningText | Get warning text for users |
hello | Function to say hello from racas |
interpretJSONBoolean | Turns 'true' and 'false' into TRUE and FALSE |
linkOldContainers | Links new subjects to old containers |
load_value_type_and_kinds | Loads a set of default lsKinds per module |
logger | Creates a new logger object or returns the "racasLogger" |
meltBatchCodes | Turns a batchCode column into rows in a long format |
meltBatchCodes2 | Turns a batchCode column into rows in a long format |
meltConcentrations | Turns concentration columns into rows in a long format |
meltConcentrations2 | Turns concentration columns into rows in a long format |
meltTimes | Turns time columns into rows in a long format |
meltTimes2 | Turns time columns into rows in a long format |
meltWideData | Melt our data sets |
Messenger | Messenger |
ModelFit-class | ModelFit |
modules | Known acas modules which require lsKinds to exist |
moveFileToExperimentFolder | File Saving (deprecated) |
moveFileToFileServer | Move file to file server |
naIfNull | Turn NULL into NA |
parentAcasEntity | Get parent of ACAS entity |
pickBestLabel | Get preferred labels |
pickBestName | Pick Best Name |
pingPong | Ping-pong table generator |
plotCurve | Curve plotting function |
prepareTableForDD | Direct Database preparation |
query | Query the application data server. |
query_replace_string_with_values | Replace character in query string with values over n times... |
readConfigFile | Read a configuration file to racas::applicationSettings |
readExcelOrCsv | Reading of Excel or CSV |
readTsvDataFileDD | Read tsv file for direct database load |
saveAcasEntities | Save ACAS entities to the server |
saveAcasFile | save file in ACAS |
saveAcasFileToExperiment | save file in ACAS |
saveAllViaDirectDatabase | Save data frames using direct database load |
saveAllViaTsv | Save data frames using tsv loader |
saveAnalysisResults | Save the HTML summary into the experiment |
saveContainer | save container objects Currently, this cannot accept labels... |
saveDataDirectDatabase | Save data tables direct to database |
saveEntitiesDD | Helper functions for saving direct to database |
saveInputParameters | Save experiment parameters |
saveLabelsFromLongFormat | Save labels from a long format |
saveStatesFromLongFormat | Save states from a long format |
saveTsvData | Save from tsv |
saveValueKinds | Saves value kinds |
saveValuesDD | Save values direct database |
saveValuesFromLongFormat | saves "raw only" values |
setExperimentHtml | Experiment html |
setExperimentStatus | Experiment status |
simple_to_advanced_fit_settings | Convert a simple dose response request to an advanced dose... |
stopUser | Fatal error tracking |
tryCatchLog | Error and warning trapping and logging |
tryCatch.W.E | Error and warning trapping |
tsv_url_to_data_table | tsv service url to data.table |
updateOrCreateStateValue | Update a value |
updateValueByTypeAndKind | Update Values |
validate | Check that strings can be coerced to others |
validateSharedMetaData | Meta data validation |
validateValueKindsFromDataFrame | validateValueKindsFromDataFrame |
warnUser | Warning tracking |
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