Hello,
I'm using hg19.
As you may know when you perform variant calling, reference variation allele may be biased due to the human reference we use (it's very uncommon but it does happen).
I would try a different human reference, I would like to know if there's any with 1000 genomes data. And try doing some variant callings and then compare results.
I've found the following link, but I'm not sure if this is a reference from 1000 genomes data:
ftp://ftp-trace.ncbi.nih.gov/1000gen...k_v37.fasta.gz
If someone could bring me some light on this issue.
Thank you.
Best regards.
I'm using hg19.
As you may know when you perform variant calling, reference variation allele may be biased due to the human reference we use (it's very uncommon but it does happen).
I would try a different human reference, I would like to know if there's any with 1000 genomes data. And try doing some variant callings and then compare results.
I've found the following link, but I'm not sure if this is a reference from 1000 genomes data:
ftp://ftp-trace.ncbi.nih.gov/1000gen...k_v37.fasta.gz
If someone could bring me some light on this issue.
Thank you.
Best regards.
Comment