hierfstat: write.ped – R documentation

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write.ped

Write ped file for analyses with PLINK

write a ped and a map file suitable for analysis with PLINK

write.ped(dat, ilab = NULL, pop = NULL, 
        fname = "dat",na.str="0",f.id=NULL,m.id=NULL,loc.pos=NULL,sex=NULL)

`dat`	a hierfstat data frame. if pop=NULL, the first column should contain the population identifier, otherwise it contains genotypes at the first locus
`ilab`	individual labels
`pop`	population id
`fname`	filename for ped file
`na.str`	character string to use for missing values
`f.id`	father id. default to unknown
`m.id`	mother id. default to unknown
`loc.pos`	the loci position default to unknown
`sex`	the individual sex. default to unknown

a map file containing the loci positions

a ped file containing genotypes etc...

Chang et al. (2015) Second-generation PLINK: rising to the challenge of larger and richer datasets

Estimation and Tests of Hierarchical F-Statistics

v0.5-10

GPL (>= 2)

Authors

Jerome Goudet [aut, cre], Thibaut Jombart [aut], Zhian N. Kamvar [ctb], Eric Archer [ctb], Olivier Hardy [ctb]

Initial release

2021-11-16