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| readGenalex-deprecated-package | Deprecated functions in the 'readGenalex' package |
| readGenalex-package | Read, manipulate, write and convert GenAlEx-format genotype data |
| addLocus | Add genotype data to an object of class "genalex" |
| addLocus.genalex | Add genotype data to an object of class "genalex" |
| as.data.frame.genalex | Convert class "genalex" to data frame |
| as.genalex | Convert object to class 'genalex' |
| as.genalex.data.frame | Convert object to class 'genalex' |
| as.genalex.default | Convert object to class 'genalex' |
| as.genalex.genalex | Convert object to class 'genalex' |
| as.genalex.loci | Convert object to class 'genalex' |
| as.genetics | Convert class "genalex" object to data frame encoding loci using classes from package "genetics" |
| as.genetics.genalex | Convert class "genalex" object to data frame encoding loci using classes from package "genetics" |
| as.loci.genalex | Convert class "genalex" object to data frame of class "loci" from package "pegas" |
| cbind.genalex | Combine loci from class "genalex" data sets |
| checkNullAlleles | Check for potential null (non-amplifying) alleles |
| computeGenalexColumns | Deprecated functions in the 'readGenalex' package |
| dropGenalexLoci | Deprecated functions in the 'readGenalex' package |
| dropLocus | Remove specified loci from data frame of class "genalex" |
| dropLocus.genalex | Remove specified loci from data frame of class "genalex" |
| extra | Return or set the extra data columns of an object of class "genalex" |
| extra<- | Return or set the extra data columns of an object of class "genalex" |
| extra<-.genalex | Return or set the extra data columns of an object of class "genalex" |
| GenAlEx | Read, manipulate, write and convert GenAlEx-format genotype data |
| genalex | Create new object of class "genalex" from constituent data |
| genotype | Read, manipulate, write and convert GenAlEx-format genotype data |
| getGenalexLocus | Deprecated functions in the 'readGenalex' package |
| getLocus | Return genotype data for specified loci |
| getLocus.genalex | Return genotype data for specified loci |
| getLocusColumns | Determine numeric column positions occupied by named loci |
| getLocusColumns.genalex | Determine numeric column positions occupied by named loci |
| getPopulation | Return genotypes for specified populations |
| getPopulation.genalex | Return genotypes for specified populations |
| is.genalex | Check to see if an object is of class 'genalex' |
| joinGenotypes | Join genotypes encoded as separate alleles into single genotypes like class "genotype" or class "loci" |
| joinGenotypes.default | Join genotypes encoded as separate alleles into single genotypes like class "genotype" or class "loci" |
| joinGenotypes.genalex | Join genotypes encoded as separate alleles into single genotypes like class "genotype" or class "loci" |
| ploidy | Return ploidy for object of class "genalex" |
| ploidy.genalex | Return ploidy for object of class "genalex" |
| printGenalexGenotype | Deprecated functions in the 'readGenalex' package |
| printGenotype | Print selected genotypes |
| printGenotype.genalex | Print selected genotypes |
| putGenalexLocus | Deprecated functions in the 'readGenalex' package |
| Qagr_adult_genotypes | Coast live oak (Quercus agrifolia) adult microsatellite genotypes |
| Qagr_pericarp_genotypes | Coast live oak (Quercus agrifolia) pericarp microsatellite genotypes |
| rbind.genalex | Combine class "genalex" data sets by adding rows |
| readGenalex | Read GenAlEx-format genotypes file |
| readGenalex-deprecated | Deprecated functions in the 'readGenalex' package |
| readGenalexExcel | Read GenAlEx-format genotypes from an Excel worksheet |
| reduceGenalexPloidy | Deprecated functions in the 'readGenalex' package |
| reducePloidy | Reduce the ploidy of an object of class "genalex" |
| reducePloidy.genalex | Reduce the ploidy of an object of class "genalex" |
| reorderGenalexLoci | Deprecated functions in the 'readGenalex' package |
| reorderLoci | Reorder class "genalex" genotype columns |
| reorderLoci.genalex | Reorder class "genalex" genotype columns |
| replaceLocus | Replace genotype data in data frame of class "genalex" |
| replaceLocus.genalex | Replace genotype data in data frame of class "genalex" |
| splitGenotypes | Split genotypes encoded like class 'genotype' into separate alleles |
| summary.genalex | Summarise contents of class 'genalex' data frame |
| writeGenalex | Write GenAlEx-format genotypes to a text file |
| writeGenalexExcel | Write GenAlEx-format genotypes to an Excel worksheet |
| writeGenepop | Write GenAlEx-format genotypes to a text file in Genepop format |