id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-258630-mvz2l3yj	Liu, Tiantian	A benchmarking study of SARS-CoV-2 whole-genome sequencing protocols using COVID-19 patient samples	2020-11-10		.txt	text/plain	11041	596	57	We compared seven different library construction protocols and specifically evaluated the cross-protocol performance in sequencing read mappability, viral genome coverage percentage and uniformity, effect of sequence depth, SNV calling concordance (reproducibility), precision (positive predictive value), and sensitivity (proportion of consensus variants identified at different sequencing depths and viral copy number inputs) across protocols. Here, we compared seven WGS protocols for SARS-CoV-2 using clinical samples from infected patients, benchmarking the performances of these protocols in several aspects including the sequencing read mappability, genome coverage (percentage and uniformity, minimum sequences required); sample storage condition; effects of viral input, sequencing depth, length and platform; sensitivity, reproducibility and precision of SNV calling and related assay factors (e.g., amount of viral input, sequencing depth and bioinformatics pipeline).	./cache/cord-258630-mvz2l3yj.txt	./txt/cord-258630-mvz2l3yj.txt