Getting centimorgan map units for 1000 Genomes data

Question

[devenvyas]

I have imputed VCFs, which I imputed using Beagle for 1000G reference sites (http://bochet.gcc.biostat.washington.edu/beagle/1000_Genomes_phase3_v5a/). From these, I have a bed/bim/fam file that I made using plink19 --vcf FILENAME --make-bed --out.

The resulting bim file has no map units, which I need for an IBD analysis. Anyone know where I can get map units for the variants in the phase 3 reference panel?

Answer 1

[Kevin Blighe]

I presume that you mean the genetic map data, which is available from here:

• https://mathgen.stats.ox.ac.uk/impute/1000GP_Phase3.html

I also saved these 1000 Genomes Phase III reference files in my personal online storage... for fear that they vanish from the WWW.

Kevin