From genotype to geographic coordinate (population genetic inference)

Question

[philippe.malric]

Here at BiogeniQ, we plan to use global screening array from illumina to get the haplogroups.

The data are in that format :

Name Chr MapInfo Alleles Transcript(s) Gene(s) In-exon Mutation(s)

GSA-rs9283150 1 565508 [A/G]
GSA-1:726912 1 726912 [A/G]
GSA-rs116587930 1 727841 [A/G]
rs3131972 1 752721 [A/G]
rs12567639 1 756268 [A/G]
GSA-rs114525117 1 759036 [A/G]
rs12127425 1 794332 [A/G]
GSA-rs79373928 1 801536 [T/G]

Do anyone know how to do it?

Big thanks to the champion!

[Kevin Blighe]

Either of these of interest to what you're aiming to do?

• A: How to predict individual ethnicity information by using hapmap data
• Produce PCA bi-plot for 1000 Genomes Phase III in VCF format

[philippe.malric]

Thank you for the reply!

[Kevin Blighe]

No problem, philippe.malric