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Life sciences · Preprint
arXiv · September 25, 2026
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Auroral spectrographs such as the Auroral Spectrograph In Skibotn (ASIS) record hundreds of thousands of emission spectra, but only a few hundred can be labelled by an expert. To exploit the rest, we pretrain a 1D Vision Transformer with a masked autoencoder on 223,000 unlabelled spectra. Without labels, its representation recovers the emission-line intensity ratios that physicists use to diagnose the precipitating particles (R^2 0.91 vs. 0.77 for an untrained control) and, under one linear probe, classifies as well as 13 features designed by experts. Fine-tuned, the model outperforms the previous supervised auroral classifier on its own benchmark (macro-AP 88.5 vs. 77.8), reaches 0.870 mAP, and exceeds the same architecture trained from scratch by +0.159 with 10% of the labels; attribution shows that it uses both N2+ bands. Could an existing pretrained model replace it? Two astronomical spectral foundation models and a time-series model transfer according to their spectral window: SpectraFM, trained in the infrared, falls below the untrained control, whereas SpecFormer, trained in the optical, approaches in-domain pretraining without reaching it.