MVP.Data.Numeric2MVP {rMVP} | R Documentation |
MVP.Data.Numeric2MVP: To transform Numeric data to MVP package Author: Haohao Zhang Build date: Sep 12, 2018
MVP.Data.Numeric2MVP(num_file, map_file, out = "mvp", maxLine = 10000, priority = "speed", row_names = FALSE, col_names = FALSE, type.geno = "char", auto_transpose = TRUE, verbose = TRUE)
num_file |
Genotype in Numeric format (0,1,2) |
map_file |
Genotype map file, SNP_name, Chr, Pos |
out |
the name of output file |
maxLine |
the max number of line to write to big matrix for each loop |
priority |
'memory' or 'speed' |
row_names |
whether the numeric genotype has row names |
col_names |
whether the numeric genotype has column names |
type.geno |
the type of genotype elements |
auto_transpose |
whether to detecte the row and column |
verbose |
whether to print the reminder |
number of individuals and markers. Output files: genotype.desc, genotype.bin: genotype file in bigmemory format phenotype.phe: ordered phenotype file, same taxa order with genotype file map.map: SNP information
numericPath <- system.file("extdata", "04_numeric", "mvp.num", package = "rMVP") mapPath <- system.file("extdata", "07_other", "mvp.map", package = "rMVP") MVP.Data.Numeric2MVP(numericPath, mapPath, file.path(tempdir(), "rMVP.test"))