A Mamba-2 state space model pretrained on DNA barcodes matches or beats BarcodeBERT on species and genus classification with far fewer parameters, reaching 99.2% seen-species linear probe and 70.2% unseen-species 1-NN accuracy.
The nucleotide transformer: Building and evaluating robust foundation models for human genomics
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BarcodeMamba: State Space Models for Biodiversity Analysis
A Mamba-2 state space model pretrained on DNA barcodes matches or beats BarcodeBERT on species and genus classification with far fewer parameters, reaching 99.2% seen-species linear probe and 70.2% unseen-species 1-NN accuracy.