What is currently the best visual and interactive genotype matrix exploration tool for large genotype matrixes, say the 1000 human genomes VCF?
So 100M plus variants, 1000+ samples, raw uncompressed VCF file size 1TB+.
One requirement is that it should do all kinds of filtering that bcftools (view) does:
But BCFTools does not meet the interactive and visual requirements. BCFTools is only interactive for small VCF files or when you use the tabix index for looking up a small region.
Another requirements if that the filtering is visual and interactive, like for example with a small genotype matrix in Excel. (I know bad idea but at least Excel interactive, visual and biologist friendly).
With interactive I mean that a filter criteria can be adjusted and you reall-time get back your updated genotype matrix. Even for complex queries were the full 100M+ variants for all 1000+ samples should be scanned the tool should be interactive.
Does something like this already exist? If so which tools? If not why not?