Hi there,
I am trying to determine the ref and alt allele used by 1K genomes at genomic loci. The VFC files, which contain the genotypes for all individual are available and when i search within them i can find certain variants.
I have another set of variants which do not have a rs# number so i searched for by chromosomal coordinates but could find them in the VCF file.
Since the VCF file contains only variants would it be safe to assume that my variant of interest was not discovered (in all 1K + people)?
Is there some other file out there which lists all the sites which were sequenced.
The variant i am looking for is located on Chromosome 11 at 47361308 (HG19)
Thank you.
Ashwin
I am trying to determine the ref and alt allele used by 1K genomes at genomic loci. The VFC files, which contain the genotypes for all individual are available and when i search within them i can find certain variants.
I have another set of variants which do not have a rs# number so i searched for by chromosomal coordinates but could find them in the VCF file.
Since the VCF file contains only variants would it be safe to assume that my variant of interest was not discovered (in all 1K + people)?
Is there some other file out there which lists all the sites which were sequenced.
The variant i am looking for is located on Chromosome 11 at 47361308 (HG19)
Thank you.
Ashwin