Benchmarking analysis reveals high accuracy and speed for Guppy basecalling, suggesting custom neural networks further improve species-specific sequencing.
Basecalling accuracy has seen significant improvements over the last 2 years. The current version of ONT's Guppy basecaller performs well overall, with good accuracy and fast performance. If higher accuracy is required, users should consider producing a custom model using a larger neural network and/or training data from the same species.
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Wick et al. (2019) studied this question.
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