On Nov 19, 2014, at 10:58, Karol Estrada <ka...@broadinstitute.org> wrote:
> Dear Heng, > > We are wondering if there’s a fast approach to use tabix or any other hack to > get the total number of variants that a VCF has without actually reading the > whole vcf file and counting the lines. I assume that the total number of rows > is somehow stored in the tbi file. No, this is not stored in the traditional tabix index. The htslib implementation of tabix should have this information in dummy bins, I think. Someone else needs to confirm, though. Heng > I read the spec of the tabix format, is n_ref the value we would be looking > for? that doesn’t seem to match the number of variants. > > Thanks > > Karol > ------------------------------------------------------------------------------ Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server from Actuate! Instantly Supercharge Your Business Reports and Dashboards with Interactivity, Sharing, Native Excel Exports, App Integration & more Get technology previously reserved for billion-dollar corporations, FREE http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
