Man pages for ScitoVation/plethem
Population Life Course Exposure to Health Effects Modeling

addChemsToHTTKFunction that adds chemical to httk package chem list.
addDataSetServer side function for the UI used to add external...
addDataSetUIUI for adding external observation datasets to projects
calc_cyp2b6Calculate cyp2b6 fraction
calcMPCPPGLCalcuate MPPGL and CPPGL based on age
calculatePartitionCoefficientsCalculate Partition Coefficient
clearProjectDbClear Project Db
createUserDbCreates a new userDb based on the empty database in the...
doIVIVErun IVIVE gadget and save files as needed.
externDbSelectRuns all select queries an arbitrary database
getAllCypDataget data for human cyp fraction by age
getAllParamValuesForModelGets all the parameter values for the model. This function...
getAllSetChoicesget all set names for a given paramter set
getAllVariabilityValuesForModelGets all the variability values for the model. This data...
getDbConnGets the connection to the pDb to run all the queries against
getLifecourseBodyHeightGet average body height using the life course equation
getLifecourseBodyHeightMaleCalculate body height of average human male using the...
getLifecourseBodyWeightGet average body weight using the life course equation
getLifecourseBodyWeightFemaleCalculate body weight in kg of average human female using the...
getLifecourseBodyWeightMaleCalculate body weight in kg of average human male using the...
getLifecourseCardiacOutputGet the cardiac output based on the life course equations
getLifecourseGlomerularFiltrationRateGet the Glomerular Filteration Rate for a given age and...
getLifecourseLungDeadSpaceGet the Lung Dead Space for a given age and gender
getLifecourseTidalVolumeGet the tidal volume for a given age and gender
getLifecourseTissuePerfusionGet perfusion for tissues provided on the basis of age and...
getLifecourseTissueVolumesGet volumes for tissues provided on the basis of age and...
getLifecourseUrineProductionRateGet the urine production rate for a given age and gender
getLifecourseVentilationRateGet the ventilation rate for a given age and gender
getMetabDataGets the metabolism data. Should not be used by directly by...
getNextIDGet the next Id for the table entry
getObservationSetChoicesGet all observation sets
getParameterSetGet the values for parameters in a given set
getProjectChemicalListget the list of chemicals currently in the project database
getVariabilitySetChoicesGet all variability sets
HT_IVIVEserver function of high throughput dosimetry
HT_IVIVEUIModule for editing high throughput reverse dosimetry...
httkCalcOralEqDoseFunction that runs the httk oral equivalent dose gadaget.
httkParameterPBTKCall httk function for parameterizing PBPK models
importHTTKDataServer function for importing HTTK data
importHTTKDataUIUI for importing data from HTTK
importParameterSetServer for import parameter module
importParameterSetUIUI for importing parameter sets
importSEEMDataServer function for seem data module
importSEEMDataUIUI for importing SEEM data.
importShedsDataServer function for importing SHEDS data
importShedsDataUIUI function for importing SHEDS data
interactiveHTLaunch HT-IVIVE interface
iviveGadgetCommand line function for running the IVIVE gadget
loadProjectLoad the project with the given name
mainDbSelectRuns all select queries to the main database.
mainDbUpdateRuns all update queries to the main database.
newEditVariabilityServer function for defining variability and uncertanity...
newEditVariabilityUIUI function for defining variability and uncertanity datasets
newProjectStart a new PLETHEM project.
newProjectGadgetCommand line function launching the new project gadget
parseTRAFileParse uploaed file for Consumer TRA
performIVIVEserver side function for performing IVIVE for a chemical
performIVIVEUIShiny module that is called when perform IVIVE button is...
preprocessUIDatapreprocess value list from UI
projectDbSelectRuns all select queries to the project database.
projectDbUpdateRuns all update queries to the project database.
projectReadTableRead all the contents of a table
projectWriteTableWrite the dataframe to the table
qsarModelDefaultCalculate Partition Coefficient using the default QSAR model
reshapePlotDatareshape plotted data to create wide form
runFDPBPKRun the PBPK models in forward dosimetry mode
runHTIVIVERun HT-IVIVE
runPlthemHTIVIVEHigh Throughput reverse dosimetry calculation using UI
saveAsParameterSetserver side function for saving a new physiological, chemical...
saveAsParameterSetUIUI for saving a new physiological, chemical or exposure set...
saveProjectSave the current project to a location
saveRestoreParameterSetServer for the restore/save dialog
saveRestoreParameterSetUIUI for the restore/save dialog
scale_cellular_enzymaticScale clearance by age when both cellular and enzymatic...
scale_enzymaticScale clerance by age for when enzymatic clearance is known...
setUserDbSets the path to the existing Db
updateUIInputsUpdate Inputs for PLETHEM UI
userDbSelectRuns all select queries to the user database.
userDbUpdateRuns all update queries to the user database.
ScitoVation/plethem documentation built on Oct. 24, 2018, 1:34 a.m.