adegenet (version 2.1.10)

genind2df: Convert a genind object to a data.frame.

Description

The function genind2df converts a genind back to a data.frame of raw allelic data.

Usage

genind2df(x, pop = NULL, sep = "", usepop = TRUE, oneColPerAll = FALSE)

Value

a data.frame of raw allelic data, with individuals in rows and loci in column

Arguments

x

a genind object

pop

an optional factor giving the population of each individual.

sep

a character string separating alleles. See details.

usepop

a logical stating whether the population (argument pop or x@pop should be used (TRUE, default) or not (FALSE)).

oneColPerAll

a logical stating whether or not alleles should be split into columns (defaults to FALSE). This will only work with data with consistent ploidies.

Author

Thibaut Jombart

See Also

df2genind, import2genind, read.genetix, read.fstat, read.structure

Examples

## simple example
df <- data.frame(locusA=c("11","11","12","32"),
locusB=c(NA,"34","55","15"),locusC=c("22","22","21","22"))
row.names(df) <- .genlab("genotype",4)
df

obj <- df2genind(df, ploidy=2, ncode=1)
obj
obj@tab


## converting a genind as data.frame
genind2df(obj)
genind2df(obj, sep="/")