I am doing some phasing using SHAPEIT.
SHAPEIT takes a genetic map as input which shows:
"Recombination rates between SNPs are provided via a genetic map that specifies the genetic position of the SNPs in cM".
SHAPEIT has a link to a set of genetic maps for all autosomes (now broken, but found on wayback machine):
This genetic map has has for each autosome a 3 column text file with the following headers:
position, COMBINED_rate(cM/Mb), Genetic_Map(cM)
But no chromosome 23.
Does anyone know where I could get a genetic map that has chromosome 23
If not does anyone know where I might look to begin making my own?