Vcftools - Alternative Vcf To Tped Conversion Tool?

Question

[Peixe]

Hi,

Does anyone know another tool besides vcftools to convert from vcf format to tped, or has any script to share? The issue is the following:

I have a pipeline working on a cluster, and looks like when several jobs are requiring vcftools at the same time to convert to tped, this slows the process, which should be very simple. The vcf files span 1Mb pairs, and different number of SNPs. I will give you a frame of the computation times for every file, and you can see that its not about the number of SNPs in file...:

After filtering, kept 15467 out of a possible 15467 Sites
Run Time = 153.00 seconds
After filtering, kept 12441 out of a possible 12441 Sites
Run Time = 274.00 seconds
After filtering, kept 15398 out of a possible 15398 Sites
Run Time = 11.00 seconds
After filtering, kept 15397 out of a possible 15397 Sites
Run Time = 14.00 seconds
After filtering, kept 15419 out of a possible 15419 Sites
Run Time = 13.00 seconds
After filtering, kept 9141 out of a possible 9141 Sites
Run Time = 80.00 seconds

Any help appreciated,

Thanks!