I am trying to merge ~ 10,000 of vcf files into one vcf file, and I run to
bcftools merge but it failed (segmentation fault) due to the large number of vcf files which I guess it is a software limitation. Then I tried to do so as batchs of 2000 vcf files at a time, which just worked fine, results in five sets of multi-vcf files (2000 samples each).
The question is how can I combine these multi-vcf files into one large multi-vcf file?
Any advice and suggestions will be greatly appreciated.