poppr (version 2.5.0)

genind2genalex: Exporting data from genind objects to genalex formatted *.csv files.

Description

genind2genalex will export a genclone or genind object to a *.csv file formatted for use in genalex.

Usage

genind2genalex(gid, filename = "genalex.csv", quiet = FALSE, pop = NULL,
  allstrata = TRUE, geo = FALSE, geodf = "xy", sep = ",",
  sequence = FALSE)

Arguments

gid

a '>genclone or '>genind object.

filename

a string indicating the name and/or path of the file you wish to create.

quiet

logical If FALSE a message will be printed to the screen.

pop

a character vector OR formula specifying the population factor. This can be used to specify a specific subset of strata or custom population factor for the output. Note that the allstrata command has precedence over this unless the value of this is a new population factor.

allstrata

if this is TRUE, the strata will be combined into a single population factor in the genalex file.

geo

logical Default is FALSE. If it is set to TRUE, the resulting file will have two columns for geographic data.

geodf

character Since the other slot in the adegenet object can contain many different items, you must specify the name of the data frame in the other slot containing your geographic coordinates. It defaults to "xy".

sep

a character specifying what character to use to separate columns. Defaults to ",".

sequence

when TRUE, sequence data will be converted to integers as per the GenAlEx specifications.

See Also

clonecorrect, '>genclone or '>genind

Examples

# NOT RUN {
data(nancycats)
genind2genalex(nancycats, "~/Documents/nancycats.csv", geo=TRUE)
# }