Choptank_eList          Example eList
Constants               Constants included with EGRET
INFOdataframe           Import metadata to create INFO data frame
WRTDSKalman             WRTDS-Kalman
as.egret                Create named list for EGRET analysis
blankTime               Deletes the computed values during periods of
                        time when there are no sample data
boxConcMonth            Box plot of the water quality data by month
boxConcThree            Three box plots side-by-side
boxQTwice               Two box plots side-by-side, discharge on sample
                        days, and discharge on all days
boxResidMonth           A box plot of WRTDS residuals by month
calculateMonthlyResults
                        Calculates monthly mean values of Q, Conc,
                        FNConc, Flux, and FNFlux for the entire record.
                        If WRTDSKalman has been run it also includes
                        the monthly mean values of GenConc and GenFlux.
censoredSegments        Generic plotting function to create censored
                        line segments
checkStartEndDate       checkStartEndDate
checkSurfaceSpan        checkSurfaceSpan
cleanUp                 cleanUp eList
compressData            Compress sample data frame
concUnit-class          concUnit class
cumQdate                Cumulative flow calculation
dataOverview            Data Overview for WRTDS
dateFormatCheck         Check date format
decimalDate             decimalDate
decimalHighLow          decimalHighLow
errorStats              Error statistics
estCrossVal             Jack-Knife cross validation of the WRTDS
                        (Weighted Regressions on Time, Discharge, and
                        Season)
estDailyFromSurfaces    Estimates all daily values of Concentration,
                        Flux, Flow-Normalized Concentration, and Flow
                        Normalized Flux
estSurfaces             Estimate the three surfaces (for yHat, SE and
                        ConcHat) as a function of DecYear and logQ and
                        store in the three-dimensional object called
                        surfaces
fixSampleFrame          Update Sample dataframe
flexFN                  Flexible Flow Normalization
flexPlotAddOn           Flexible Flow Normalization Plot Add On
flowDuration            Computes several values of the flow duration
                        curve for streamflow centered on a specific
                        date of the year
fluxBiasMulti           Produces 8-panel plot that is useful for
                        determining if there is a flux bias problem
fluxBiasStat            Compute the flux bias statistic: (mean of
                        estimated flux - mean of observed flux) / mean
                        of estimated flux
fluxUnit-class          fluxUnit class
generalAxis             Axis generation for log discharge
genericEGRETDotPlot     Generic EGRET plotting function
getDaily                Get Daily dataframe from EGRET object
getInfo                 Get INFO dataframe from EGRET object
getSample               Get Sample dataframe from EGRET object
getSurfaces             Get surfaces matrix from EGRET object
is.egret                Check for EGRET object
jitterSam               jitter Sample
logPretty1              Sets up tick marks for an axis with a log
                        scale, where the graph is small
logPretty3              Sets up tick marks for an axis with a log scale
makeAnnualSeries        Produces annual series of 8 streamflow
                        statistics (and a lowess smooth of them) from
                        daily streamflow data
makeAugmentedSample     Create randomized residuals and observations
                        for data sets that have some censored data
makeDateInfo            makeDateInfo
mergeReport             mergeReport
modelEstimation         Estimation process for the WRTDS (Weighted
                        Regressions on Time, Discharge, and Season)
monthLabel-class        monthLabel class
multiPlotDataOverview   Produces a 4 panel plot that gives an overview
                        of the data set prior to any processing
plot15                  Makes 15 graphs of streamflow statistics on a
                        single page.  These encompass the 7-day
                        minimum, mean, and 1-day maximum for each of
                        the following 5 Periods of Analysis: Annual,
                        Fall, Winter, Spring and Summer.
plot1of15               plots 1 of the 15 graphs of streamflow
                        statistics on a single page
plotConcHist            Graph of annual concentration and flow
                        normalized concentration versus year
plotConcPred            Plot of Observed Concentration versus Estimated
                        Concentration
plotConcQ               Plot of Observed Concentration versus Discharge
plotConcQSmooth         Plot up to three curves representing the
                        concentration versus discharge relationship.
                        Each curve is a different point in time.
plotConcTime            Plot of Observed Concentration versus Time
plotConcTimeDaily       Plot of the time series of daily concentration
                        estimates and the sample values for the days
                        that were sampled
plotConcTimeSmooth      Plot up to three curves representing the
                        concentration versus time relationship, each
                        curve representing a different flow.
plotContours            Color contour plot of the estimated surfaces as
                        a function of discharge and time (surfaces
                        include log concentration, standard error, and
                        concentration)
plotDiffContours        Plots the difference between two years from a
                        contour plot created by plotContours
plotFlowSingle          Creates a plot of a time series of a particular
                        flow statistic and a loess smooth of that flow
                        statistic
plotFluxHist            Graph of annual flux and flow normalized flux
                        versus year
plotFluxPred            Graph of observed versus estimated flux
plotFluxQ               Sample data plot: observed log flux vs log
                        discharge
plotFluxTimeDaily       Plot of the time series of daily flux estimates
                        and the sample values for the days that were
                        sampled
plotFour                Makes four graphs of streamflow statistics on a
                        single page
plotFourStats           Makes four graphs of annual streamflow
                        statistics on a single page
plotMonthTrend          Plot monthly trend result from runPairs
plotQTimeDaily          Plot of the discharge time series
plotResidPred           Plot of the residuals from WRTDS versus the
                        estimated values (all in log concentration
                        units)
plotResidQ              Plot of the residuals from WRTDS (in log
                        concentration units) versus the discharge
plotResidTime           Plot of the residuals from WRTDS (in log
                        concentration units) versus time
plotSDLogQ              Graph of the standard deviation of the log of
                        daily discharge versus year
plotTimeSlice           plotTimeSlice
plotWRTDSKalman         plotWRTDSKalman
populateConcentrations
                        Populate Concentration Columns
populateDaily           Populate Daily data frame
populateDailySamp       Merge concentration to Daily
populateDateColumns     Populate Date Columns
populateParameterINFO   Populate Parameter Information Columns
populateSampleColumns   Populate Sample Columns
populateSiteINFO        Populate Site Information Columns
print.egret             EGRET helper functions
printFluxUnitCheatSheet
                        Reminder to user of flux unit properties (such
                        as kg/day, tons/year, etc).
printGroups             Print information about group analysis
printPairs              Print information about pairs analysis
printSeries             Print annual results for a given streamflow
                        statistic
printqUnitCheatSheet    Reminder to user of flow Unit properties such
                        as cubic meters per second or thousands of
                        cubic feet per second.
processQWData           Processing of Water Quality Data
qUnit-class             qUnit class
randomSubset            randomSubset
readDataFromFile        Basic Data Import for Water Flow Data
readNWISDaily           Import NWIS Daily Data for EGRET analysis
readNWISSample          Import USGS Sample Data for EGRET analysis
readUserDaily           Import user daily data for EGRET analysis
readUserSample          Import user-supplied sample data for EGRET
                        analysis
readWQPSample           Import Sample Data from the Water Quality
                        Portal for WRTDS
removeDuplicates        Remove duplicates values from Sample data
                        frame.
runGroups               Runs a comparison of any group of years in the
                        record.
runPairs                Runs a comparison of any two years in the
                        record.
runSeries               Annual series of flow-normalized concentration
                        and flow-normalized flux
runSurvReg              Run the weighted survival regression for a set
                        of estimation points (defined by DecYear and
                        Log(Q))
saveResults             A utility program for saving the contents of
                        the workspace This function saves the
                        workspace. Future versions of EGRET will not
                        include this function, use saveRDS to save
                        individual eList objects. It assigns the file a
                        name using the abbreviations for station and
                        constituent.
selectDays              Creates a subset Daily data frame that only
                        contains daily estimates for the specified
                        period of analysis
setPA                   Sets up the period of analysis (the portion of
                        the year being evaluated).
setSeasonLabel          Create a character variable that describes the
                        period of analysis, when period of analysis has
                        already been set in AnnualResults
setSeasonLabelByUser    Creates a character variable that describes the
                        period of analysis, when the period of analysis
                        is being set by the user and not from
                        AnnualResults
setUpEstimation         setUpEstimation
setupYears              Creates the AnnualResults data frame from the
                        Daily data frame
startEnd                startEnd
stitch                  stitch surfaces
surfaceIndex            Compute the 6 parameters needed to lay out the
                        grid for the surfaces computed in estSurfaces
surfaceStartEnd         Surface date limits
tableChange             Create a table of the changes in
                        flow-normalized values between various points
                        in time in the record
tableFlowChange         Prints table of change metrics for a given
                        streamflow statistic
tableResults            Table of annual results for discharge,
                        concentration and flux
triCube                 Tricube weight function
yPretty                 Sets up tick marks for an axis for a graph with
                        an arithmetic scale which starts at zero
