I'm looking at two homeologs and trying to gain information about their potentially different evolutionary rates. There is a publicly available dataset in the form of a VCF file from whole genome sequencing of many different, diverse cultivars. Is there a way to get nucleotide diversity (and calculate for coding sequence, synonymous, nonsynonymous etc) or Ka/Ks values for the two paralogs?
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NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification,...10-30-2026, 06:46 AM
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