# Genetic Study of Plant Mixtures

## Documentation for package ‘plantmix’ version 1.0.2

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

CC | Change in contribution
estimGRM | Estimate a GRM
estimRYMRep | RYM with "rep" effect
estimRYRep | RY with "rep" effect
fitDBVSBVinter | Fit DBV-SBV models for interspecific mixtures
fitGMASMA | Fit GMA-SMA models
getDesignBinaryCropMix | Optimize design for binary crop mixtures
getDesignBinaryVarMix | Optimize design for binary varietal mixtures
getMixtureList | Reformat composition of mixtures into a list
getMixturesPerGeno | Get mixture(s) per genotype
imageMat | Image of a matrix
infoCriterion | Information criterion
invvec | Inverse vec operator
invvecMixes | Inverse vec for mixtures
LER | Land equivalent ratio (LER)
mixSowingWeight | Sowing
mkAllZSMA | Design matrices of SMAs for GMA-SMA models
mkZGMA | Design matrix of GMAs for GMA-SMA models
mkZinterspe | Design matrices for DBV-SBV models in an inter-specific trial
mkZSMA | Design matrix of SMAs for GMA-SMA models
nbSeedsToSownInPure | Sowing
normBiasError | Normalized bias error
paramBoot4TMB | Parametric bootstrap with TMB
pivotMixData2Long | Pivot mixture data into the long format
pivotMixData2Wide | Pivot mixture data into the wide format
plotDesignCropMix | Plot design for crop mixtures
plotDesignVarMix | Plot design for varietal mixtures
plotDiallel | Plot diallel
RII | Relative interaction index (RII)
RIInet | Net Relative interaction index (RIInet)
rmatnorm | Matrix-variate Normal distribution
RY | Relative yield (RY)
RYM | Relative yield of mixture (RYM)
RYP | Relative yield per plant (RYP)
RYT | Relative yield total (RYT)
simulDBVSBVinter | Simulate w.r.t. a DBV-SBV model for interspecific mixtures
simulGenosDoseStruct | Simulate SNP genotypes
summarizeGMASMAs | Model summary
vec | Vec operator