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ecotoxicology (version 1.0.1)

Methods for Ecotoxicology

Description

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.

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Install

install.packages('ecotoxicology')

Monthly Downloads

147

Version

1.0.1

License

GPL (>= 3)

Maintainer

Last Published

October 14th, 2015

Functions in ecotoxicology (1.0.1)

Probit estimation similar to the EPA's Ecological Exposure Research Division (EERD) tool

MakeMonotonicallyDecreasing

Make monotonically decreasing sequence

ProbitApproxStandardErrorOfDosage

Approximate Standard Error of dosage

Probit estimation regression with Finney's method

GenTableIIIFinney1964

Generate table III from Finney1964 "Maximum and minimum working probits and range"

AphisRumicisDerrisMalaccensis

data on the toxicity to Aphis rumicis of an ether extract of Derris malaccensis

AdjustHendersonTilton

Calculate corrected efficacy % with Henderson-Tilton's formula

Calculate corrected efficacy % with Abbott's formula

PercentageToProbit

Convert percentages to Probit values

Table5Finney1964

The Probability, P, the Ordinate, Z, and Z^2, table V of Finney, 1964

ProbitVarianceRate

Variance of rate of increase of probit value per unit increase in x

AdjustSchneiderOrelli

Calculate corrected efficacy % with Schneider-Orelli's formula

GenTableIFinney1964

Generate table I from Finney1964 "Transformation of percentages to probits"

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

ProbitStandardErrorRate

Standard Error of rate of increase of probit value per unit increase in x

Probit value "g"

ScaleHorsfallBarratt

Horsfall-Barratt Scale for Measuring Plant Disease

IsMonotonicallyDecreasing

Determine if a series is monotonically decreasing

GenTableVFinney1964

Generate table V from Finney1964 "The Probability, P, the Ordinate, Z, and Z^2"

TestMix2poisons

Generate table 26 from Finney1964 "The Function for Planning Tests of Mixtures of Two Poisons"

GenTableVIIIFinney1964

Generate table VIII from Finney1964 "The Weighting Coefficient in Wadley's Problem"

MakeMonotonicallyIncreasing

Smoothed Mortality Proportion (monotonically increasing sequence)

Calculate LC50 from a matrix with 3 columns: concentration, number of exposed subjects and number of deaths

Calculate working probit

SheepsheadMinnow40SK

Mortality data from a fathead minnow larval survival and growth test (40 organisms per concentration)

GenTableIXFinney1964

Generate table IX from Finney1964 "Minimum Working Probit, Range, and Weighting Coefficient for Inverse Sampling"

GenTableVIIFinney1964

Generate table VII from Finney1964 "Distribution of t"

ScaleGauhlStover

Gauhl’s modification of Stover’s severity scoring system

GenTableIIFinney1964

Generate table II from Finney1964 "The weighting coefficient and Q/Z"

PercentageToArcsin

Convert percentages to Arcsin values

GenTableIVFinney1964

Generate table IV from Finney1964 "Working probits"

WAAPP Pest Count scoring system

ProbitStandardErrorOfDosage

Standard Error of dosage

Table8Finney1964

The Weighting Coefficient in Wadley's Problem, table VIII of Finney, 1964

Archer Scale for assessment of leaf damage

Spearman Karber estimation

ProbitToPercentage

Convert Probit values to percentages

AdjustSunShepard

Calculate corrected efficacy % with Sun-Shepard's formula

GenTableVIFinney1964

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

Calculate the ordinate to the normal distribution corresponding to the probability P, exactly like Finney's

Trimmed Spearman-Karber method, as per Hamilton and EPA

ProbitVarianceDosage

Variance of dosage

ProbitWeightingCoef

Calculate the weighting coefficient

Internal ecotoxicology functions

Inverse error function

Table4Finney1964

Working probits, table IV of Finney, 1964

IsMonotonicallyIncreasing

Determine if a series is monotonically increasing

Estimate the column for Chi calculation

ProbitFiducialLimits

Probit Fiducial Limits

Table3Finney1964

Maximum and Minimum working probits and Range, table III of Finney, 1964

Table9Finney1964

Minimum Working Probit, Range, and Weighting Coefficient for Inverse Sampling, table IX of Finney, 1964

Table1Finney1964

Transformation of Percentages to Probits, table I of Finney, 1964

Dunnett.t.Statistic

Critical Values of Dunnett's t Statistic

ArcsinToPercentage

Convert Arcsin values to percentages

ProbitRegression

Probit regression line

Calculate the ordinate to the normal distribution corresponding to the probability P

Table2Finney1964

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

Calculate weighting coefficient from expected probit