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README.md

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# RiboNucleic Acid Language Model - RiNALMo
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### [Paper](https://arxiv.org/abs/2403.00043) | [Weights](https://zenodo.org/records/10725749)
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### [Paper](https://arxiv.org/abs/2403.00043) | [Weights](https://zenodo.org/records/15043668)
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[Rafael Josip Penić](https://www.fer.unizg.hr/en/rafael_josip.penic)<sup>1</sup>,
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[Tin Vlašić](https://sites.google.com/view/tinvlasic)<sup>2</sup>,
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```bash
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mkdir weights
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cd weights
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_pretrained.pt # 650M params
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wget https://zenodo.org/records/10725749/files/rinalmo_mega_pretrained.pt # 150M params
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wget https://zenodo.org/records/10725749/files/rinalmo_micro_pretrained.pt # 35M params
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_pretrained.pt # 650M params
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wget https://zenodo.org/records/15043668/files/rinalmo_mega_pretrained.pt # 150M params
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wget https://zenodo.org/records/15043668/files/rinalmo_micro_pretrained.pt # 35M params
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```
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4. Download fine-tuned weights.
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```bash
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# Download fine-tuned weights for secondary structure prediction.
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-16s_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-23s_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-5s_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-srp_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-grp1_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-telomerase_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-tmRNA_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-tRNA_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_archiveII-RNaseP_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ss_bprna_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-16s_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-23s_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-5s_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-srp_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-grp1_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-telomerase_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-tmRNA_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-tRNA_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_archiveII-RNaseP_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ss_bprna_ft.pt
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# Download fine-tuned weights for splice-site prediction.
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_splice_acceptor_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_splice_donor_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_splice_acceptor_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_splice_donor_ft.pt
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# Download fine-tuned weights for mean ribosome loading prediction.
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_mrl_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_mrl_ft.pt
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# Download fine-tuned weights for ncRNA functional family classification.
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ncrna_class_0_noise_ft.pt
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wget https://zenodo.org/records/10725749/files/rinalmo_giga_ncrna_class_200_noise_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ncrna_class_0_noise_ft.pt
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wget https://zenodo.org/records/15043668/files/rinalmo_giga_ncrna_class_200_noise_ft.pt
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cd ..
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```

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