ancestrymap2lfmm {LEA} | R Documentation |
ancestrymap
to lfmm
formatA function that converts from the ancestrymap
format to the
lfmm
format.
ancestrymap2lfmm(input.file, output.file = NULL, force = TRUE)
input.file |
A character string containing a path to the input file,
a genotypic matrix in the |
output.file |
A character string containing a path to the output file,
a genotypic matric in the |
force |
A boolean option. If FALSE, the input file is converted only if the output file does not exist. If TRUE, convert the file anyway. |
output.file |
A character string containing a path to the output file,
a genotypic matric in the |
Eric Frichot
ancestrymap
lfmm.data
ancestrymap2geno
geno2lfmm
ped2lfmm
ped2geno
vcf2geno
lfmm2geno
# Creation of a file called "example.ancestrymap" # containing 4 SNPs for 3 individuals. data("example_ancestrymap") write.table(example_ancestrymap,"example.ancestrymap", col.names = FALSE, row.names = FALSE, quote = FALSE) # Conversion from the ancestrymap format ("example.ancestrymap") # to the lfmm format ("example.lfmm"). # By default, the name of the output file is the same name # as the input file with a .lfmm extension. # Create file: "example.lfmm". output = ancestrymap2lfmm("example.ancestrymap") # Conversion from the ancestrymap format (example.ancestrymap) # to the geno format with the output file called plop.lfmm. # Create file: "plop.lfmm". output = ancestrymap2lfmm("example.ancestrymap", "plop.lfmm") # As force = false and the file "example.lfmm" already exists, # nothing happens. output = ancestrymap2lfmm("example.ancestrymap", force = FALSE)