DATA FOR THE "Genetic diversity, breed composition and admixture of Kenyan domestic pigs" PAPER SUBMITTED TO PLOS ONE


Attached (pigdata_PLOS) is a genotype file for all pigs included in the analysis.
Pigs were genotypes using both the Illumina PorcineSNP60 or PorcineSNP80 bead chips (Illumina Inc., San Diego, CA, USA). 
The SNP names correspond to markers on those genotyping array.
The pig genome assembly Sus scrofa (SSC) build 10.2 was used to map the genomic positions of the SNPs.

SNPs are included in the first column. 
Individual animal are included in the first row of the file. To identify populations, 
see the ID codes below for guidance:

ID_HAPMAP2_box4_B7_SSWB: wild Boar
ID_RF1_G1P: Large white crosses
ID_IMF: Duroc pigs
ID_BP: Bush pigs
ID_SHREK: Bush pig
ID_WH: Warthogs
ID_NDH: A subset of Local pigs close to Homabay
ID_HB: Local pigs from Homabay
ID_XXXX: Yorkshire pigs
ID_XXX: Local pigs from Busia
BP: Bush pig
Pos_12: Domestic pig testing positive for ASFv infection
M__Mava: Warthog
KPAL: Landrace pigs

The file BusiaPig_Phenotype_PLOS has the African Swine Fever virus testing status for pigs from Busia. 
Only pigs from Busia were tested for ASFv infection.