vcf_example_riself: Data generated from VCF file with biallelic markers from a...

In onemap: Construction of Genetic Maps in Experimental Crosses

Data generated from VCF file with biallelic markers from a RIL population produced by selfing

Description

Simulated biallelic data set for an ri self population.

Usage

data("vcf_example_riself")

Format

The format is: List of 10 $ geno : num [1:92, 1:25] 3 3 1 3 1 3 3 1 3 1 ... ..- attr(*, "dimnames")=List of 2 .. ..$ : chr [1:92] "ID1" "ID3" "ID4" "ID5" ... .. ..$ : chr [1:25] "SNP16" "SNP12" "SNP17" "SNP10" ... $ n.ind : int 92 $ n.mar : int 25 $ segr.type : chr [1:25] "A.B" "A.B" "A.B" "A.B" ... $ segr.type.num: logi [1:25] NA NA NA NA NA NA ... $ n.phe : int 0 $ pheno : NULL $ CHROM : chr [1:25] "1" "1" "1" "1" ... $ POS : int [1:25] 1791 6606 9001 11326 11702 15533 17151 18637 19146 19220 ... $ input : chr "vcf_example_riself.raw" - attr(*, "class")= chr [1:2] "onemap" "riself"

Details

A total of 92 rils individuals were genotyped with 25 markers. The data was generated from a VCF file. It contains chromossome and position informations for each marker. It is included to be used as a example in order to understand how to convert VCF file to OneMap input data with the functions vcf2raw and onemap_read_vcfR.

Author(s)

Cristiane Hayumi Taniguti, [e-mail]

See Also

read_onemap for details about objects of class onemap.

Examples

data(vcf_example_riself)
plot(vcf_example_riself)

onemap documentation built on Nov. 26, 2022, 9:05 a.m.