Statistical methods for safety assessment in agricultural field trials

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Documentation for package ‘BSagri’ version 0.1-5

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allignment Allignment according to one factor
BOOTSimpsonD Simultaneous confidence intervals for Simpson indices
BOOTSimpsonR Simultaneous confidence intervals for Simpson indices
Brachycera Eklektor counts of Brachycera
c2compnames Define row names of a contrast matrix, depending on its column names
CCDiff Contrasts of parameters simulated in BUGS
CCDiff.boot Compute contrasts of chains of joint empirical distributions.
CCDiff.default Compute contrasts of chains of joint empirical distributions.
CCRatio Ratio - contrasts of parameters simulated in BUGS
CCRatio.boot Compute ratio contrasts of chains of joint empirical distributions.
CCRatio.default Compute ratio contrasts of chains of joint empirical distributions.
checkargssim For internal use.
Cica1 Catches of Planthoppers and Leafhoppers
Cica2 Catches of Planthoppers and Leafhoppers
CIGLM Wrapper to compute confidence intervals from glms
CInp Construct local confidence intervals from joint empirical distribution.
CInp.bugs Construct local confidence intervals from joint empirical distribution.
CInp.CCDiff Construct local confidence intervals from joint empirical distribution.
CInp.CCRatio Construct local confidence intervals from joint empirical distribution.
CInp.default Construct local confidence intervals from joint empirical distribution.
CountRep Synthetic repeated count data set
Decomp A simulated data set
Diptera Soil eklektor data for some families of Diptera
ExNBCov Simulated example data, drawn from a Negative Binomial Distribution
ExPCov Simulated example data following a Poisson distribution
fakeln A simulated data set of lognormal data
Feeding Pupation and Hatching rate in a feeding experiment with four varieties
IAcontrasts Interaction contrasts for 2-factorial designs
IAcontrastsCMAT Interaction contrasts for a two-factorial design
Lepi Insect counts of 12 Species
minus2slash Replace - by / in character strings
MM1 Simulated data set for a simple mixed model
MMPois Simulated data for a simple mixed model with Poisson response
MMPoisRep Simulated data for a simple mixed model with Poisson response
modelparm.gamlss For internal use. Extract model parameters needed for multcomp from objects of class gamlss or geeglm.
modelparm.geeglm For internal use. Extract model parameters needed for multcomp from objects of class gamlss or geeglm.
Nematocera Eklektor counts of Nematocera
plotCI.pairwiseCI Plot confidence intervals calculated by pairwiseCI
plotCI.simplesimint Plot confidence intervals calculated by pairwiseCI
plotCI.UnlogCI Plot confidence intervals calculated by pairwiseCI
print.CInp Print function for CInp
print.SCSnp Print function for SCSnp
print.simplesimint Print objects of class "simplesimint"
print.UnlogCI Print function for UnlogCI
R2Bugsdat1w For internal use
R2Bugsdat1w.data.frame For internal use.
SCSnp Simultaneous confidence sets from empirical joint distribution.
SCSnp.bugs Simultaneous confidence sets from empirical joint distribution.
SCSnp.CCDiff Simultaneous confidence sets from empirical joint distribution.
SCSnp.CCRatio Simultaneous confidence sets from empirical joint distribution.
SCSnp.default Simultaneous confidence sets from empirical joint distribution.
simplesimint Simultaneous confidence intervals from raw estimates
summary.simplesimint Detailed print out for simplesimint objects
UnlogCI Transform confidence intervals from glm fits and geeglm fits.
UnlogCI.glht Transform confidence intervals from glm fits and geeglm fits.
vcov.gamlss Extract variance covariance matrix from objects of class gamlss
vcov.geeglm Extract variance covariance matrix from objects of class geeglm