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Benchmarking framework for metagenomic and 16S amplicon profilers improves tool evaluation, suggesting enhanced user access.
Abstract Metagenomics has enabled the study of microbial communities without the need for culturing or prior knowledge of sample composition. However, the analysis of the sequencing reads is complex and has led to a multitude of computational strategies, the choice of which poses a challenge for practitioners and creates visibility barriers for novel tools. Here, we present LEMMI v2 (https://lemmi.ezlab.org), a major evolution of our platform for continuous benchmarking of metagenomic profilers, where developers can receive impartial benchmarks and users benefit from a catalogue of evaluated tools. We also extend the approach to 16S amplicon profiling with LEMMI16S (https://www.lemmi16s.ezlab.org).
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Seppey et al. (2025) studied this question.
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