Package: ecotoxicology 1.0.1

Jose Gama

ecotoxicology: Methods for Ecotoxicology

Implementation of the EPA's Ecological Exposure Research Division (EERD) tools (discontinued in 1999) for Probit and Trimmed Spearman-Karber Analysis. Probit and Spearman-Karber methods from Finney's book "Probit analysis a statistical treatment of the sigmoid response curve" with options for most accurate results or identical results to the book. Probit and all the tables from Finney's book (code-generated, not copied) with the generating functions included. Control correction: Abbott, Schneider-Orelli, Henderson-Tilton, Sun-Shepard. Toxicity scales: Horsfall-Barratt, Archer, Gauhl-Stover, Fullerton-Olsen, etc.

Authors:Jose Gama [aut, cre, trl]

ecotoxicology_1.0.1.tar.gz
ecotoxicology_1.0.1.tar.gz(r-4.5-noble)ecotoxicology_1.0.1.tar.gz(r-4.4-noble)
ecotoxicology_1.0.1.tgz(r-4.4-emscripten)ecotoxicology_1.0.1.tgz(r-4.3-emscripten)
ecotoxicology.pdf |ecotoxicology.html✨
ecotoxicology/json (API)

# Install 'ecotoxicology' in R:
install.packages('ecotoxicology', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

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This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.89 score 3 stars 26 scripts 137 downloads 53 exports 0 dependencies

Last updated 9 years agofrom:3099df5a54. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 19 2024
R-4.5-linuxOKDec 19 2024

Exports:AdjustAbbottAdjustHendersonTiltonAdjustSchneiderOrelliAdjustSunShepardArcsinToPercentageCalculateLC50CalculateLCnerfinvGenTableIFinney1964GenTableIIFinney1964GenTableIIIFinney1964GenTableIVFinney1964GenTableIXFinney1964GenTableVFinney1964GenTableVIFinney1964GenTableVIIFinney1964GenTableVIIIFinney1964IsMonotonicallyDecreasingIsMonotonicallyIncreasingMakeMonotonicallyDecreasingMakeMonotonicallyIncreasingPercentageToArcsinPercentageToProbitProbitApproxStandardErrorOfDosageProbitChiProbitEPAProbitFiducialLimitsProbitFinneyProbitRegressionProbitStandardErrorOfDosageProbitStandardErrorRateProbitToPercentageProbitVALUEgProbitVarianceDosageProbitVarianceRateProbitwProbitWeightingCoefProbitWorkingPProbitZProbitZ4decScaleArcherScaleGauhlStoverScaleHorsfallBarrattSpearmanKarberTestMix2poisonsTSKV1V2V3V4V5V6WAAPPpestCount

Dependencies:

Readme and manuals

Help Manual

Help pageTopics
Calculate corrected efficacy % with Abbott's formulaAdjustAbbott
Calculate corrected efficacy % with Henderson-Tilton's formulaAdjustHendersonTilton
Calculate corrected efficacy % with Schneider-Orelli's formulaAdjustSchneiderOrelli
Calculate corrected efficacy % with Sun-Shepard's formulaAdjustSunShepard
data on the toxicity to Aphis rumicis of an ether extract of Derris malaccensisAphisRumicisDerrisMalaccensis
Convert Arcsin values to percentagesArcsinToPercentage
Calculate LC50 from a matrix with 3 columns: concentration, number of exposed subjects and number of deathsCalculateLC50
Calculate LC for N between 0 (LC0) and 100 (LC100)CalculateLCn
Critical Values of Dunnett's t StatisticDunnett.t.Statistic
Inverse error functionerfinv
Generate table I from Finney1964 "Transformation of percentages to probits"GenTableIFinney1964
Generate table II from Finney1964 "The weighting coefficient and Q/Z"GenTableIIFinney1964
Generate table III from Finney1964 "Maximum and minimum working probits and range"GenTableIIIFinney1964
Generate table IV from Finney1964 "Working probits"GenTableIVFinney1964
Generate table IX from Finney1964 "Minimum Working Probit, Range, and Weighting Coefficient for Inverse Sampling"GenTableIXFinney1964
Generate table V from Finney1964 "The Probability, P, the Ordinate, Z, and Z^2"GenTableVFinney1964
Generate table VI from Finney1964 "Distribution of chi^2"GenTableVIFinney1964
Generate table VII from Finney1964 "Distribution of t"GenTableVIIFinney1964
Generate table VIII from Finney1964 "The Weighting Coefficient in Wadley's Problem"GenTableVIIIFinney1964
Determine if a series is monotonically decreasingIsMonotonicallyDecreasing
Determine if a series is monotonically increasingIsMonotonicallyIncreasing
Make monotonically decreasing sequenceMakeMonotonicallyDecreasing
Smoothed Mortality Proportion (monotonically increasing sequence)MakeMonotonicallyIncreasing
Convert percentages to Arcsin valuesPercentageToArcsin
Convert percentages to Probit valuesPercentageToProbit
Approximate Standard Error of dosageProbitApproxStandardErrorOfDosage
Estimate the column for Chi calculationProbitChi
Probit estimation similar to the EPA's Ecological Exposure Research Division (EERD) toolProbitEPA
Probit Fiducial LimitsProbitFiducialLimits
Probit estimation regression with Finney's methodProbitFinney
Probit regression lineProbitRegression
Standard Error of dosageProbitStandardErrorOfDosage
Standard Error of rate of increase of probit value per unit increase in xProbitStandardErrorRate
Convert Probit values to percentagesProbitToPercentage
Probit value "g"ProbitVALUEg
Variance of dosageProbitVarianceDosage
Variance of rate of increase of probit value per unit increase in xProbitVarianceRate
Calculate weighting coefficient from expected probitProbitw
Calculate the weighting coefficientProbitWeightingCoef
Calculate working probitProbitWorkingP
Calculate the ordinate to the normal distribution corresponding to the probability PProbitZ
Calculate the ordinate to the normal distribution corresponding to the probability P, exactly like Finney'sProbitZ4dec
Archer Scale for assessment of leaf damageScaleArcher
Gauhl’s modification of Stover’s severity scoring systemScaleGauhlStover
Horsfall-Barratt Scale for Measuring Plant DiseaseScaleHorsfallBarratt
Mortality data from a fathead minnow larval survival and growth test (40 organisms per concentration)SheepsheadMinnow40SK
Spearman Karber estimationSpearmanKarber
Transformation of Percentages to Probits, table I of Finney, 1964Table1Finney1964
The Weighting Coefficient and Q/Z, table II of Finney, 1964Table2Finney1964
Maximum and Minimum working probits and Range, table III of Finney, 1964Table3Finney1964
Working probits, table IV of Finney, 1964Table4Finney1964
The Probability, P, the Ordinate, Z, and Z^2, table V of Finney, 1964Table5Finney1964
The Weighting Coefficient in Wadley's Problem, table VIII of Finney, 1964Table8Finney1964
Minimum Working Probit, Range, and Weighting Coefficient for Inverse Sampling, table IX of Finney, 1964Table9Finney1964
Generate table 26 from Finney1964 "The Function for Planning Tests of Mixtures of Two Poisons"TestMix2poisons
Trimmed Spearman-Karber method, as per Hamilton and EPATSK
WAAPP Pest Count scoring systemWAAPPpestCount