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sanger-pathogens / snp-sites

Finds SNP sites from a multi-FASTA alignment file
http://sanger-pathogens.github.io/snp-sites/
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Possibility to specify known reference #90

Open jcgrenier opened 4 years ago

jcgrenier commented 4 years ago

Hi, would there be possible to have an option to specify a reference so that the REF column respect this one and the genotype calls in the vcf as well?

Thanks a lot for this tool!

Have a nice day! JC

mengyuankan commented 2 years ago

This is a very handy tool!!! I am also wondering if it is possible to specify a reference genome so that we can directly have the position, ref allele, and alt allele in place? Thank you very much.

thorellk commented 2 years ago

I also want this, please :)