GxG.network             Genetic interaction network
IndPerGen               Individual number per generation
annotation              Annotation simulation
bigt                    Genotype transportor
build.cov               Correlation building
cal.eff                 QTN genetic effects
checkEnv                Environmental factor checking
generate.map            Marker information
generate.pop            Population generator
geno.cvt1               Genotype code convertor 1
geno.cvt2               Genotype code convertor 2
genotype                Genotype simulation
getfam                  Family index and within-family index
logging.initialize      Logging initialization
logging.log             Logging
logging.print           Logging printer
mate                    Mate
mate.2waycro            Two-way cross
mate.3waycro            Three-way cross
mate.4waycro            Four-way cross process
mate.assort             Assortative mating
mate.backcro            Back cross
mate.clone              Clone
mate.dh                 Doubled haploid
mate.disassort          Disassortative mating
mate.randexself         Random mating excluding self-pollination
mate.randmate           Random mating
mate.selfpol            Self-pollination
mate.userped            User-specified pedigree mating
param.annot             Annotation parameters generator
param.geno              Genotype parameters generator
param.global            Global parameters generator
param.pheno             Phenotype parameters generator
param.reprod            Reproduction parameters generator
param.sel               Selection parameters generator
param.simer             Parameter generator
phenotype               Phenotype simulation
pop.geno                Raw genotype matrix from outside in simdata
pop.map                 Map file from outside in simdata
remove_bigmatrix        Big.matrix removing
reproduces              Reproduction
selects                 Selection
simer                   Simer
simer.Data              Data handling
simer.Data.Bfile2MVP    simer.Data.Bfile2MVP: To transform plink binary
                        data to MVP package
simer.Data.Env          Environmental factor selection
simer.Data.Geno         Genotype data quality control
simer.Data.Impute       Genotype data imputation
simer.Data.Json         Data quality control
simer.Data.MVP2Bfile    simer.Data.MVP2Bfile: To transform MVP data to
                        binary format
simer.Data.MVP2MVP      Genotype data conversion
simer.Data.Map          simer.Data.Map: To check map file
simer.Data.Ped          Pedigree data quality control
simer.Data.Pheno        Phenotype data quality control
simer.Data.SELIND       Selection index construction
simer.Data.cHIBLUP      Genetic evaluation
simer.Version           Simer version
write.file              File writing
