Fig. 3: Errors in consensus sequences from the ‘Early Omicron’ African dataset, split by sequencing technology and amplicon scheme. | Nature Methods

Fig. 3: Errors in consensus sequences from the ‘Early Omicron’ African dataset, split by sequencing technology and amplicon scheme.

From: Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny

Fig. 3: Errors in consensus sequences from the ‘Early Omicron’ African dataset, split by sequencing technology and amplicon scheme.The alternative text for this image may have been generated using AI.

a, Plots show the percentage of consensus sequences with an error, taking the maximum value in windows of length 50 bp. Error here is defined as where the consensus sequence has an A/C/G/T call, the read depth passes Viridian’s default filters (Methods) and the reads support a different A/C/G/T call. Results are shown for Viridian, the original assemblies and for the ARTIC-ILM and ARTIC-ONT assembly workflows. b, Total errors called by each method, summarizing the data shown in a for each dataset. c, Total number of sites with at least one error.

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