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.

AuthorJose Gama [aut, cre, trl]
Date of publication2015-10-14 12:25:39
MaintainerJose Gama <rxprtgama@gmail.com>
LicenseGPL (>= 3)
Version1.0.1

View on CRAN

Man pages

AdjustAbbott: Calculate corrected efficacy % with Abbott's formula

AdjustHendersonTilton: Calculate corrected efficacy % with Henderson-Tilton's...

AdjustSchneiderOrelli: Calculate corrected efficacy % with Schneider-Orelli's...

AdjustSunShepard: Calculate corrected efficacy % with Sun-Shepard's formula

AphisRumicisDerrisMalaccensis: data on the toxicity to Aphis rumicis of an ether extract of...

ArcsinToPercentage: Convert Arcsin values to percentages

CalculateLC50: Calculate LC50 from a matrix with 3 columns: concentration,...

CalculateLCn: Calculate LC for N between 0 (LC0) and 100 (LC100)

Dunnett.t.Statistic: Critical Values of Dunnett's t Statistic

ecotoxicology-internal: Internal ecotoxicology functions

erfinv: Inverse error function

GenTableIFinney1964: Generate table I from Finney1964 "Transformation of...

GenTableIIFinney1964: Generate table II from Finney1964 "The weighting coefficient...

GenTableIIIFinney1964: Generate table III from Finney1964 "Maximum and minimum...

GenTableIVFinney1964: Generate table IV from Finney1964 "Working probits"

GenTableIXFinney1964: Generate table IX from Finney1964 "Minimum Working Probit,...

GenTableVFinney1964: Generate table V from Finney1964 "The Probability, P, the...

GenTableVIFinney1964: Generate table VI from Finney1964 "Distribution of chi^2"

GenTableVIIFinney1964: Generate table VII from Finney1964 "Distribution of t"

GenTableVIIIFinney1964: Generate table VIII from Finney1964 "The Weighting...

IsMonotonicallyDecreasing: Determine if a series is monotonically decreasing

IsMonotonicallyIncreasing: Determine if a series is monotonically increasing

MakeMonotonicallyDecreasing: Make monotonically decreasing sequence

MakeMonotonicallyIncreasing: Smoothed Mortality Proportion (monotonically increasing...

PercentageToArcsin: Convert percentages to Arcsin values

PercentageToProbit: Convert percentages to Probit values

ProbitApproxStandardErrorOfDosage: Approximate Standard Error of dosage

ProbitChi: Estimate the column for Chi calculation

ProbitEPA: Probit estimation similar to the EPA's Ecological Exposure...

ProbitFiducialLimits: Probit Fiducial Limits

ProbitFinney: Probit estimation regression with Finney's method

ProbitRegression: Probit regression line

ProbitStandardErrorOfDosage: Standard Error of dosage

ProbitStandardErrorRate: Standard Error of rate of increase of probit value per unit...

ProbitToPercentage: Convert Probit values to percentages

ProbitVALUEg: Probit value "g"

ProbitVarianceDosage: Variance of dosage

ProbitVarianceRate: Variance of rate of increase of probit value per unit...

Probitw: Calculate weighting coefficient from expected probit

ProbitWeightingCoef: Calculate the weighting coefficient

ProbitWorkingP: Calculate working probit

ProbitZ: Calculate the ordinate to the normal distribution...

ProbitZ4dec: Calculate the ordinate to the normal distribution...

ScaleArcher: Archer Scale for assessment of leaf damage

ScaleGauhlStover: Gauhl’s modification of Stover’s severity scoring system

ScaleHorsfallBarratt: Horsfall-Barratt Scale for Measuring Plant Disease

SheepsheadMinnow40SK: Mortality data from a fathead minnow larval survival and...

SpearmanKarber: Spearman Karber estimation

Table1Finney1964: Transformation of Percentages to Probits, table I of Finney,...

Table2Finney1964: The Weighting Coefficient and Q/Z, table II of Finney, 1964

Table3Finney1964: Maximum and Minimum working probits and Range, table III of...

Table4Finney1964: Working probits, table IV of Finney, 1964

Table5Finney1964: The Probability, P, the Ordinate, Z, and Z^2, table V of...

Table8Finney1964: The Weighting Coefficient in Wadley's Problem, table VIII of...

Table9Finney1964: Minimum Working Probit, Range, and Weighting Coefficient for...

TestMix2poisons: Generate table 26 from Finney1964 "The Function for Planning...

TSK: Trimmed Spearman-Karber method, as per Hamilton and EPA

WAAPPpestCount: WAAPP Pest Count scoring system

Files in this package

ecotoxicology
ecotoxicology/NAMESPACE
ecotoxicology/demo
ecotoxicology/demo/Finney.R
ecotoxicology/demo/TSKtest.R
ecotoxicology/demo/00Index
ecotoxicology/data
ecotoxicology/data/Dunnett.t.Statistic.rda
ecotoxicology/data/SheepsheadMinnow40SK.rda
ecotoxicology/data/Table2Finney1964.rda
ecotoxicology/data/Table9Finney1964.rda
ecotoxicology/data/Table4Finney1964.rda
ecotoxicology/data/Table8Finney1964.rda
ecotoxicology/data/Table3Finney1964.rda
ecotoxicology/data/Table1Finney1964.rda
ecotoxicology/data/AphisRumicisDerrisMalaccensis.rda
ecotoxicology/data/Table5Finney1964.rda
ecotoxicology/R
ecotoxicology/R/ecotoxicology.R ecotoxicology/R/TSK.R
ecotoxicology/MD5
ecotoxicology/DESCRIPTION
ecotoxicology/man
ecotoxicology/man/GenTableIXFinney1964.Rd ecotoxicology/man/PercentageToProbit.Rd ecotoxicology/man/ScaleGauhlStover.Rd ecotoxicology/man/ProbitEPA.Rd ecotoxicology/man/ProbitApproxStandardErrorOfDosage.Rd ecotoxicology/man/ProbitZ4dec.Rd ecotoxicology/man/ScaleHorsfallBarratt.Rd ecotoxicology/man/Table9Finney1964.Rd ecotoxicology/man/Probitw.Rd ecotoxicology/man/ScaleArcher.Rd ecotoxicology/man/MakeMonotonicallyDecreasing.Rd ecotoxicology/man/TSK.Rd ecotoxicology/man/AphisRumicisDerrisMalaccensis.Rd ecotoxicology/man/GenTableIVFinney1964.Rd ecotoxicology/man/MakeMonotonicallyIncreasing.Rd ecotoxicology/man/ProbitWeightingCoef.Rd ecotoxicology/man/ProbitStandardErrorRate.Rd ecotoxicology/man/ProbitStandardErrorOfDosage.Rd ecotoxicology/man/ProbitVarianceRate.Rd ecotoxicology/man/ProbitFinney.Rd ecotoxicology/man/ecotoxicology-internal.Rd ecotoxicology/man/Dunnett.t.Statistic.Rd ecotoxicology/man/SheepsheadMinnow40SK.Rd ecotoxicology/man/Table1Finney1964.Rd ecotoxicology/man/GenTableIFinney1964.Rd ecotoxicology/man/ProbitRegression.Rd ecotoxicology/man/GenTableVIIIFinney1964.Rd ecotoxicology/man/GenTableIIFinney1964.Rd ecotoxicology/man/ProbitVarianceDosage.Rd ecotoxicology/man/AdjustSchneiderOrelli.Rd ecotoxicology/man/ProbitZ.Rd ecotoxicology/man/ProbitToPercentage.Rd ecotoxicology/man/Table8Finney1964.Rd ecotoxicology/man/ProbitFiducialLimits.Rd ecotoxicology/man/WAAPPpestCount.Rd ecotoxicology/man/GenTableVIFinney1964.Rd ecotoxicology/man/GenTableIIIFinney1964.Rd ecotoxicology/man/ProbitWorkingP.Rd ecotoxicology/man/Table5Finney1964.Rd ecotoxicology/man/CalculateLC50.Rd ecotoxicology/man/ProbitChi.Rd ecotoxicology/man/GenTableVFinney1964.Rd ecotoxicology/man/AdjustSunShepard.Rd ecotoxicology/man/CalculateLCn.Rd ecotoxicology/man/GenTableVIIFinney1964.Rd ecotoxicology/man/erfinv.Rd ecotoxicology/man/IsMonotonicallyIncreasing.Rd ecotoxicology/man/PercentageToArcsin.Rd ecotoxicology/man/Table2Finney1964.Rd ecotoxicology/man/AdjustHendersonTilton.Rd ecotoxicology/man/AdjustAbbott.Rd ecotoxicology/man/Table4Finney1964.Rd ecotoxicology/man/TestMix2poisons.Rd ecotoxicology/man/ProbitVALUEg.Rd ecotoxicology/man/ArcsinToPercentage.Rd ecotoxicology/man/Table3Finney1964.Rd ecotoxicology/man/IsMonotonicallyDecreasing.Rd ecotoxicology/man/SpearmanKarber.Rd

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