ecotoxicology: Methods for Ecotoxicology
Version 1.0.1

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.

Browse man pages Browse package API and functions Browse package files

AuthorJose Gama [aut, cre, trl]
Date of publication2015-10-14 12:25:39
MaintainerJose Gama <rxprtgama@gmail.com>
LicenseGPL (>= 3)
Version1.0.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("ecotoxicology")

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<e2><80><99>s modification of Stover<e2><80><99>s...
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

Functions

AdjustAbbott Man page Source code
AdjustHendersonTilton Man page Source code
AdjustSchneiderOrelli Man page Source code
AdjustSunShepard Man page Source code
AphisRumicisDerrisMalaccensis Man page
ArcsinToPercentage Man page Source code
CalculateLC50 Man page Source code
CalculateLCn Man page Source code
Dunnett.t.Statistic Man page
GenTableIFinney1964 Man page Source code
GenTableIIFinney1964 Man page Source code
GenTableIIIFinney1964 Man page Source code
GenTableIVFinney1964 Man page Source code
GenTableIXFinney1964 Man page Source code
GenTableVFinney1964 Man page Source code
GenTableVIFinney1964 Man page Source code
GenTableVIIFinney1964 Man page Source code
GenTableVIIIFinney1964 Man page Source code
IsMonotonicallyDecreasing Man page Source code
IsMonotonicallyIncreasing Man page Source code
MakeMonotonicallyDecreasing Man page Source code
MakeMonotonicallyIncreasing Man page Source code
PercentageToArcsin Man page Source code
PercentageToProbit Man page Source code
ProbitApproxStandardErrorOfDosage Man page Source code
ProbitChi Man page Source code
ProbitEPA Man page Source code
ProbitFiducialLimits Man page Source code
ProbitFinney Man page Source code
ProbitRegression Man page Source code
ProbitStandardErrorOfDosage Man page Source code
ProbitStandardErrorRate Man page Source code
ProbitToPercentage Man page Source code
ProbitVALUEg Man page Source code
ProbitVarianceDosage Man page Source code
ProbitVarianceRate Man page Source code
ProbitWeightingCoef Man page Source code
ProbitWorkingP Man page Source code
ProbitZ Man page Source code
ProbitZ4dec Man page Source code
Probitw Man page Source code
ScaleArcher Man page Source code
ScaleGauhlStover Man page Source code
ScaleHorsfallBarratt Man page Source code
SheepsheadMinnow40SK Man page
SpearmanKarber Man page Source code
TSK Man page Source code
Table1Finney1964 Man page
Table2Finney1964 Man page
Table3Finney1964 Man page
Table4Finney1964 Man page
Table5Finney1964 Man page
Table8Finney1964 Man page
Table9Finney1964 Man page
TestMix2poisons Man page Source code
V1 Man page Source code
V2 Man page Source code
V3 Man page Source code
V4 Man page Source code
V5 Man page Source code
V6 Man page Source code
WAAPPpestCount Man page Source code
erfinv Man page Source code

Files

NAMESPACE
demo
demo/Finney.R
demo/TSKtest.R
demo/00Index
data
data/Dunnett.t.Statistic.rda
data/SheepsheadMinnow40SK.rda
data/Table2Finney1964.rda
data/Table9Finney1964.rda
data/Table4Finney1964.rda
data/Table8Finney1964.rda
data/Table3Finney1964.rda
data/Table1Finney1964.rda
data/AphisRumicisDerrisMalaccensis.rda
data/Table5Finney1964.rda
R
R/ecotoxicology.R
R/TSK.R
MD5
DESCRIPTION
man
man/GenTableIXFinney1964.Rd
man/PercentageToProbit.Rd
man/ScaleGauhlStover.Rd
man/ProbitEPA.Rd
man/ProbitApproxStandardErrorOfDosage.Rd
man/ProbitZ4dec.Rd
man/ScaleHorsfallBarratt.Rd
man/Table9Finney1964.Rd
man/Probitw.Rd
man/ScaleArcher.Rd
man/MakeMonotonicallyDecreasing.Rd
man/TSK.Rd
man/AphisRumicisDerrisMalaccensis.Rd
man/GenTableIVFinney1964.Rd
man/MakeMonotonicallyIncreasing.Rd
man/ProbitWeightingCoef.Rd
man/ProbitStandardErrorRate.Rd
man/ProbitStandardErrorOfDosage.Rd
man/ProbitVarianceRate.Rd
man/ProbitFinney.Rd
man/ecotoxicology-internal.Rd
man/Dunnett.t.Statistic.Rd
man/SheepsheadMinnow40SK.Rd
man/Table1Finney1964.Rd
man/GenTableIFinney1964.Rd
man/ProbitRegression.Rd
man/GenTableVIIIFinney1964.Rd
man/GenTableIIFinney1964.Rd
man/ProbitVarianceDosage.Rd
man/AdjustSchneiderOrelli.Rd
man/ProbitZ.Rd
man/ProbitToPercentage.Rd
man/Table8Finney1964.Rd
man/ProbitFiducialLimits.Rd
man/WAAPPpestCount.Rd
man/GenTableVIFinney1964.Rd
man/GenTableIIIFinney1964.Rd
man/ProbitWorkingP.Rd
man/Table5Finney1964.Rd
man/CalculateLC50.Rd
man/ProbitChi.Rd
man/GenTableVFinney1964.Rd
man/AdjustSunShepard.Rd
man/CalculateLCn.Rd
man/GenTableVIIFinney1964.Rd
man/erfinv.Rd
man/IsMonotonicallyIncreasing.Rd
man/PercentageToArcsin.Rd
man/Table2Finney1964.Rd
man/AdjustHendersonTilton.Rd
man/AdjustAbbott.Rd
man/Table4Finney1964.Rd
man/TestMix2poisons.Rd
man/ProbitVALUEg.Rd
man/ArcsinToPercentage.Rd
man/Table3Finney1964.Rd
man/IsMonotonicallyDecreasing.Rd
man/SpearmanKarber.Rd
ecotoxicology documentation built on May 20, 2017, 12:52 a.m.