Should we Ignore heterozygous SNPs while constructing SNP based phylogeny
Hello!
Should we ignore heterozygous SNPs while constructing SNP based phylogeny for bacterial genomes. I'm Using CSI Phylogeny 1.4. CSI Phylogeny calls SNPs, filters the SNPs, does site validation and infers a phylogeny based on the concatenated alignment of the high quality SNPs.
Thank You
Cheers
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