Package: smwrQW 0.7.14
Dave Lorenz
smwrQW: Tools for censored data analysis
This package provides tools for the analysis and graphing of censored data, focussing on water-quality data. It provides a uniform user interface to many different methods for the analysis.
Authors:
smwrQW_0.7.14.tar.gz
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smwrQW.pdf |smwrQW.html✨
smwrQW/json (API)
| # Install 'smwrQW' in R: |
| install.packages('smwrQW', repos = c('https://ldecicco-usgs.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/usgs-r/smwrqw/issues
- atrazine.df - Atrazine Data A dataset of atrazine samples, replicates, and blanks collected by the U.S. Geological Survey from October 1, 2001 through September 30, 2012.
- atrazine.dl - Atrazine Reporting Data A dataset of the reporting and detection levels for atrazine from the U.S. Geological Survey National Water Quality Lab.
- atrazine.spk - Atrazine Spike Data A dataset of atrazine environmental and spike samples collected by the U.S. Geological Survey from October 1, 2001 through September 30, 2012.
- pcodeColData - Selected USGS parameter Codes
Last updated 2 years agofrom:7f9d3f24c9. Checks:ERROR: 2 WARNING: 7. Indexed: no.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | FAIL | Oct 27 2024 |
| R-4.5-win-x86_64 | WARNING | Oct 27 2024 |
| R-4.5-linux-x86_64 | ERROR | Oct 27 2024 |
| R-4.4-win-x86_64 | WARNING | Oct 27 2024 |
| R-4.4-mac-x86_64 | WARNING | Oct 27 2024 |
| R-4.4-mac-aarch64 | WARNING | Oct 27 2024 |
| R-4.3-win-x86_64 | WARNING | Oct 27 2024 |
| R-4.3-mac-x86_64 | WARNING | Oct 27 2024 |
| R-4.3-mac-aarch64 | WARNING | Oct 27 2024 |
Exports:%~=%addArithas.lcensas.mcensas.qwcensCorcensKSample.testcensMean.CIcensMove.1censMulticomp.testcensorcensoringcensorLevelscensppcensPPCC.testcensQtiles.CIcensQuantilecensRegcensReg_AMLE.fitcensReg_AMLE.predcensReg_MLE.fitcensStatscensSumStatscode01codeUCompareconvert2qwconvertFqwdlimitdotPlotfillIngehanScoresgenWilcox.testimportNWISqwimportQWimputeLessThanskendallATS.testmakeColNamesMathmcenKMmcenMLEmcenROSmdlAMLEmdlKMmdlKMstatsmdlMLEmdlROSmImputeLessThansmultiplypairedPratt.testpcodeNWISqwpctCenspowppw.testqw2mcensqwCoalesceqwRPDratiorbindQWreadNWQLdlsdlFillshowsplitQualtimePlotViewxyPlot
Dependencies:abindakimaaskpassbackportsbitbit64bootbroomcachemcarcarDataclicliprcodetoolscoincolorspacecowplotcpp11crayoncurldataRetrievalDerivdigestdoBydplyrfansifarverfastmapFormulagenericsggplot2gluegtablehmshttrisobandjsonliteKernSmoothlabelinglatticeleapslibcoinlifecyclelme4lubridatemagrittrMASSMatrixMatrixModelsmatrixStatsmemoisemgcvmicrobenchmarkmimeminqamodelrmodeltoolsmultcompmunsellmvtnormNADAnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigprettyunitsprogresspurrrquantregR6randtestsRColorBrewerRcppRcppEigenreadrrlangsandwichscalessmwrBasesmwrGraphssmwrStatsspSparseMstringistringrsurvivalsysTH.datatibbletidyrtidyselecttimechangetruncnormtzdbutf8vctrsviridisLitevroomwithrXMLxml2zCompositionszoo
Comparing Paired Data
Rendered fromComparingPairedData.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Comparing Three or More Groups
Rendered fromComparingMoreGroups.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Comparing Two Groups
Rendered fromComparingTwoGroups.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Computing Summary Statistics
Rendered fromComputingSummaryStatistics.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Confidence Intervals
Rendered fromConfidenceIntervals.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-08-10
Correlation
Rendered fromCorrelation.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Multivariate Methods
Rendered fromMultivariateMethods.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2018-09-18
Started: 2015-07-09
Plotting Censored Data
Rendered fromPlottingCensoredData.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-05-20
Quality Control Data Analysis
Rendered fromQualityControl.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2017-07-28
Started: 2015-08-10
Regression
Rendered fromRegression.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-09
Working with Water-Quality Data
Rendered fromWaterQualityData.Rnwusingutils::Sweaveon Oct 27 2024.Last update: 2015-12-30
Started: 2015-07-14
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tools for censored water-quality data analysis | smwrQW-package |
| Subset an Object | subset.qw [.lcens [.mcens [.qw |
| Possible Equality | %~=% |
| Add Water-Quality Data | add |
| Arithmetic Methods for 'lcens', 'mcens', and 'qw' objects | Arith,lcens,lcens-method Arith,lcens,numeric-method Arith,mcens,mcens-method Arith,mcens,numeric-method Arith,numeric,lcens-method Arith,numeric,mcens-method Arith,numeric,qw-method Arith,qw,numeric-method Arith,qw,qw-method Arith-censored |
| Character Representations | as.character.lcens as.character.mcens as.character.qw |
| Coerce to a Data Frame | as.data.frame.lcens as.data.frame.mcens as.data.frame.qw |
| Numeric Representations | as.double.qw |
| Left-censored Data Conversion | as.lcens as.lcens,character,missing,missing-method as.lcens,lcens,missing,missing-method as.lcens,numeric,missing,character-method as.lcens,numeric,missing,logical-method as.lcens,numeric,missing,missing-method as.lcens,numeric,numeric,character-method as.lcens,numeric,numeric,logical-method as.lcens,numeric,numeric,missing-method as.lcens,qw,missing,missing-method as.lcens,qw,numeric,missing-method |
| Multiply-censored Data Conversion | as.mcens as.mcens,character,missing,missing-method as.mcens,lcens,missing,missing-method as.mcens,mcens,missing,missing-method as.mcens,numeric,missing,character-method as.mcens,numeric,missing,integer-method as.mcens,numeric,missing,missing-method as.mcens,numeric,missing,numeric-method as.mcens,numeric,numeric,missing-method as.mcens,qw,missing,missing-method |
| Water-quality Data Conversion | as.qw as.qw,numeric,character,character,numeric,character,character,character,character,character,missing-method as.qw,numeric,character,character,numeric,character,character,character,character,character,numeric-method |
| Atrazine Data A dataset of atrazine samples, replicates, and blanks collected by the U.S. Geological Survey from October 1, 2001 through September 30, 2012. | atrazine.df |
| Atrazine Reporting Data A dataset of the reporting and detection levels for atrazine from the U.S. Geological Survey National Water Quality Lab. | atrazine.dl |
| Atrazine Spike Data A dataset of atrazine environmental and spike samples collected by the U.S. Geological Survey from October 1, 2001 through September 30, 2012. | atrazine.spk |
| Box Plot | boxPlot.data.frame boxPlot.lcens boxPlot.qw |
| Not exported | boxPlotCensStats |
| Combine Values into a Vector | c.lcens c.mcens c.qw |
| Correlation | censCor |
| Test for difference in left-censored samples | censKSample.test |
| Mean with Confidence Limits | censMean.CI |
| Censored Maintenance of Variance Extension, Type 1 | censMove.1 |
| Multiple Comparisons | censMulticomp.test |
| Multiply-censored Data Conversion | censor |
| Describe Censoring | censoring censoring.default censoring.lcens censoring.mcens censoring.qw |
| Describe Censoring | censorLevels censorLevels.default censorLevels.lcens censorLevels.mcens censorLevels.qw |
| Probability Plotting Positions | censpp censpp.default censpp.lcens censpp.mcens |
| Test for Normality | censPPCC.test |
| Quantiles with Confidence Limits | censQtiles.CI |
| Sample Quantiles | censQuantile censQuantile.default censQuantile.lcens censQuantile.mcens censQuantile.qw |
| Censored Data Regression | censReg |
| Support Functions for Censored Regression | censReg_AMLE.fit censReg_MLE.fit |
| Support Function for Censored Regression | censReg_AMLE.pred |
| Mean and Standard Deviation | censStats censStats.default censStats.lcens censStats.mcens censStats.qw |
| Summary Statistics | censSumStats |
| Code Censored Values | code01 code01.data.frame code01.default |
| Code Censored Values | codeU codeU.data.frame codeU.default |
| Extract Model Coefficients | coef.censReg |
| Comparison Methods for 'lcens', 'mcens', and 'qw' objects | Compare,lcens,numeric-method Compare,mcens,numeric-method Compare,numeric,lcens-method Compare,numeric,mcens-method Compare,numeric,qw-method Compare,qw,numeric-method Compare-censored |
| Water-Quality Data | convert2qw |
| Water-Quality Data | convertFqw |
| Impute Detection Limits | dlimit |
| Censored Data Methods for Function 'dotPlot' | dotPlot,mcens-method dotPlot,qw-method dotPlot-censored |
| Empirical Distribution Function | ecdfPlot.lcens ecdfPlot.qw |
| Extract AIC from a Fitted Model | extractAIC.censReg |
| Estimate Censored Values | fillIn fillIn.lcens fillIn.mcens fillIn.numeric |
| Extract Model Fitted Values | fitted.censReg |
| Encode in a Common Format | format.lcens format.mcens format.qw |
| Gehan Test Scores | gehanScores |
| Test for Difference in Censored Samples | genWilcox.test |
| Water-Quality Data | importNWISqw |
| Water-Quality Data | importQW |
| Impute Censored Values | imputeLessThans imputeLessThans.data.frame imputeLessThans.default |
| Missing Values | is.na.lcens is.na.mcens is.na.qw |
| Kendall' tau | kendallATS.test |
| Left-censored Data | lcens-class |
| Length of an Object | length.lcens length.mcens length.qw |
| Extract Log-Likelihood | logLik.censReg |
| Column Names | makeColNames |
| Mathematical Transform Methods for 'lcens' objects | Math,lcens-method Math,mcens-method Math,qw-method Math-censored |
| Estimate Statistics | mcenKM |
| Estimate Statistics | mcenMLE |
| Estimate Statistics | mcenROS |
| Mutliply-censored Data | mcens-class |
| Estimate Statistics | mdlAMLE |
| Estimate Statistics | mdlKM |
| Estimate Statistics | mdlKMstats |
| Estimate Statistics | mdlMLE |
| Estimate Statistics | mdlROS |
| Arithmetic Mean | mean.lcens mean.mcens |
| Arithmetic Mean | mean.qw |
| Median Value | median.lcens median.mcens median.qw |
| Impute Censored Values | mImputeLessThans mImputeLessThans.data.frame mImputeLessThans.default |
| Multiply Water-Quality Data by a Number | multiply |
| Extract the Number of Observations from a Fit | nobs.censReg |
| Test for difference in left-censored samples | pairedPratt.test |
| Selected USGS parameter Codes | pcodeColData |
| Parameter Code Information | pcodeNWISqw |
| Percent Censored | pctCens |
| Empirical Cumulative Percent | percentile.lcens percentile.qw |
| Diagnostic Plot | plot.censReg |
| Plot | plot.genWilcox plot.ppw |
| Plot Water-Quality Data | plot.qw |
| Diagnostic Plot | plot.summary.censReg |
| Power Transforms | pow |
| Test for difference in left-censored samples | ppw.test |
| Predict Values | predict.censReg |
| Print Results | print.censMCT |
| Print Results | print.censQuantile |
| Print Results | print.censReg |
| Print Results | print.censStats |
| Print Values | print.lcens print.mcens print.qw |
| Print Results | print.summary.censReg |
| Probability Plot | probPlot.lcens probPlot.qw |
| Q-Q Plot | qqPlot.lcens qqPlot.qw |
| Sample Quantiles | quantile.lcens quantile.mcens quantile.qw |
| Water-quality Data | qw-class |
| Conversion to class "mcens" | qw2mcens |
| Replace missing values | qwCoalesce |
| Relative Differences | qwRPD |
| Compute Ratios | ratio |
| Combine Data by Rows | rbindQW |
| Historical Reporting Limits | readNWQLdl |
| Extract Model Residuals | residuals.censReg |
| Root-Mean-Squared Error | rmse.censReg |
| Estimate Statistics | sdlFill |
| Show Methods for 'WSqw' objects | show,lcens-method show,mcens-method show,qw-method show-censored |
| Sorting Vectors | sort.lcens sort.mcens |
| Split Leading Qualifiers | splitQual |
| Display Structure | str.lcens str.mcens str.qw |
| Summarizing Linear Model Fits | summary.censReg |
| Summarize Data | summary.lcens summary.mcens summary.qw |
| Censored Data Methods for Function 'timePlot' | timePlot,Date,lcens-method timePlot,Date,qw-method timePlot-censored |
| Variance-Covariance Matrix | vcov.censReg |
| Invoke a Data Viewer | View |
| Variance Inflation Factors | vif.censReg |
| Censored Data Methods for Function 'xyPlot' | xyPlot,Date,qw-method xyPlot,lcens,lcens-method xyPlot,numeric,lcens-method xyPlot,numeric,mcens-method xyPlot,numeric,qw-method xyPlot-censored |