Can one determine the genome-wide coverage of an individual genome deposited in the NCBI SRA database?
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Not unless you align the data. You could calculate theoretical fold representation (based on total number of bases/genome size in bp) but that may not mean much. -
Thanks, GenoMax. Is there a correlation between low genome coverage and the number of genomic gaps one sees in the alignment with a reference genome? I am trying to make sure that I look at genome-wide coverages of 10 or greater.Comment
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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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