Haploview and plink

When I executed plink to get .ped and .info file then IT generated only for 8 chromosomes out of 22, X, Y and M. Kindly help to get all chromosomes.

1. When I am uploading .ped and .info file in Haploview.jar then it is showing loading 0% for creating hapmap

HaploView is intended for specific genomic intervals where you want to define tagging SNPs, compute linkage disequilibrium, etc. It will not be able to load an entire genome’s worth of information ,even if from a low density SNP array. That is too much information and it will ‘crash’ the computer, or just never load.

For simple usage of HaploView coming from PLINK, please see my 2 previous answers:

Kevin