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{
"plm_models": {
"ESM2-8M": "facebook/esm2_t6_8M_UR50D",
"ESM2-35M": "facebook/esm2_t12_35M_UR50D",
"ESM2-150M": "facebook/esm2_t30_150M_UR50D",
"ESM2-650M": "facebook/esm2_t33_650M_UR50D",
"ESM2-3B": "facebook/esm2_t36_3B_UR50D",
"ESM2-15B": "facebook/esm2_t48_15B_UR50D",
"ESM-1b": "facebook/esm1b_t33_650M_UR50S",
"ESM-1v-1": "facebook/esm1v_t33_650M_UR90S_1",
"ESM-1v-2": "facebook/esm1v_t33_650M_UR90S_2",
"ESM-1v-3": "facebook/esm1v_t33_650M_UR90S_3",
"ESM-1v-4": "facebook/esm1v_t33_650M_UR90S_4",
"ESM-1v-5": "facebook/esm1v_t33_650M_UR90S_5",
"ProtBert-uniref50": "Rostlab/prot_bert",
"ProtBert-bfd": "Rostlab/prot_bert_bfd",
"ProtT5-xl-bfd": "Rostlab/prot_t5_xl_bfd",
"ProtT5-xl-uniref50": "Rostlab/prot_t5_xl_uniref50",
"ProtT5-xxl-uniref50": "Rostlab/prot_t5_xxl_uniref50",
"ProtT5-xxl-bfd": "Rostlab/prot_t5_xxl_bfd",
"Ankh-base": "ElnaggarLab/ankh-base",
"Ankh-large": "ElnaggarLab/ankh-large",
"ProSST-4096": "AI4Protein/ProSST-4096",
"ProSST-2048": "AI4Protein/ProSST-2048",
"ProSST-1024": "AI4Protein/ProSST-1024",
"ProSST-512": "AI4Protein/ProSST-512",
"ProSST-128": "AI4Protein/ProSST-128",
"ProSST-20": "AI4Protein/ProSST-20",
"ProPrime-690M": "AI4Protein/Prime_690M",
"Deep_base": "AI4Protein/deep_base",
"Deep_BPE_50": "AI4Protein/deep_bpe_50",
"Deep_BPE_100": "AI4Protein/deep_bpe_100",
"Deep_BPE_200": "AI4Protein/deep_bpe_200",
"Deep_BPE_400": "AI4Protein/deep_bpe_400",
"Deep_BPE_800": "AI4Protein/deep_bpe_800",
"Deep_BPE_1600": "AI4Protein/deep_bpe_1600",
"Deep_BPE_3200": "AI4Protein/deep_bpe_3200",
"Deep_Unigram_50": "AI4Protein/deep_unigram_50",
"Deep_Unigram_100": "AI4Protein/deep_unigram_100",
"Deep_Unigram_200": "AI4Protein/deep_unigram_200",
"Deep_Unigram_400": "AI4Protein/deep_unigram_400",
"Deep_Unigram_800": "AI4Protein/deep_unigram_800",
"Deep_Unigram_1600": "AI4Protein/deep_unigram_1600",
"Deep_Unigram_3200": "AI4Protein/deep_unigram_3200"
},
"dataset_configs": {
"Demo_Solubility": "data/Demo/Demo_Solubility_HF.json",
"DeepET_Topt": "data/DeepET_Topt/DeepET_Topt_HF.json",
"DeepET_Topt_AlphaFold2": "data/DeepET_Topt/DeepET_Topt_AlphaFold2_HF.json",
"DeepET_Topt_ESMFold": "data/DeepET_Topt/DeepET_Topt_ESMFold_HF.json",
"DeepLoc2Multi": "data/DeepLoc2Multi/DeepLoc2Multi_HF.json",
"DeepLoc2Multi_AlphaFold2": "data/DeepLoc2Multi/DeepLoc2Multi_AlphaFold2_HF.json",
"DeepLocBinary": "data/DeepLocBinary/DeepLocBinary_HF.json",
"DeepLocBinary_AlphaFold2": "data/DeepLocBinary/DeepLocBinary_AlphaFold2_HF.json",
"DeepLocBinary_ESMFold": "data/DeepLocBinary/DeepLocBinary_ESMFold_HF.json",
"DeepLocMulti": "data/DeepLocMulti/DeepLocMulti_HF.json",
"DeepLocMulti_AlphaFold2": "data/DeepLocMulti/DeepLocMulti_AlphaFold2_HF.json",
"DeepLocMulti_ESMFold": "data/DeepLocMulti/DeepLocMulti_ESMFold_HF.json",
"DeepSol": "data/DeepSol/DeepSol_HF.json",
"DeepSol_ESMFold": "data/DeepSol/DeepSol_ESMFold_HF.json",
"DeepSoluE": "data/DeepSoluE/DeepSoluE_HF.json",
"DeepSoluE_ESMFold": "data/DeepSoluE/DeepSoluE_ESMFold_HF.json",
"EC": "data/EC/EC_HF.json",
"EC_AlphaFold2": "data/EC/EC_AlphaFold2_HF.json",
"EC_ESMFold": "data/EC/EC_ESMFold_HF.json",
"eSOL": "data/eSOL/eSOL_HF.json",
"eSOL_AlphaFold2": "data/eSOL/eSOL_AlphaFold2_HF.json",
"eSOL_ESMFold": "data/eSOL/eSOL_ESMFold_HF.json",
"FLIP_AAV_des-mut": "data/FLIP_AAV/FLIP_AAV_des-mut_HF.json",
"FLIP_AAV_low-vs-high": "data/FLIP_AAV/FLIP_AAV_low-vs-high_HF.json",
"FLIP_AAV_mut-des": "data/FLIP_AAV/FLIP_AAV_mut-des_HF.json",
"FLIP_AAV_one-vs-rest": "data/FLIP_AAV/FLIP_AAV_one-vs-rest_HF.json",
"FLIP_AAV_sampled": "data/FLIP_AAV/FLIP_AAV_sampled_HF.json",
"FLIP_AAV_seven-vs-rest": "data/FLIP_AAV/FLIP_AAV_seven-vs-rest_HF.json",
"FLIP_AAV_two-vs-rest": "data/FLIP_AAV/FLIP_AAV_two-vs-rest_HF.json",
"FLIP_GB1_low-vs-high": "data/FLIP_GB1/FLIP_GB1_low-vs-high_HF",
"FLIP_GB1_one-vs-rest": "data/FLIP_GB1/FLIP_GB1_one-vs-rest_HF",
"FLIP_GB1_sampled": "data/FLIP_GB1/FLIP_GB1_sampled_HF",
"FLIP_GB1_three-vs-rest": "data/FLIP_GB1/FLIP_GB1_three-vs-rest_HF",
"FLIP_GB1_two-vs-rest": "data/FLIP_GB1/FLIP_GB1_two-vs-rest_HF.json",
"GO_BP": "data/GO_BP/GO_BP_HF.json",
"GO_BP_AlphaFold2": "data/GO_BP/GO_BP_AlphaFold2_HF.json",
"GO_BP_ESMFold": "data/GO_BP/GO_BP_ESMFold_HF.json",
"GO_MF": "data/GO_MF/GO_MF_HF.json",
"GO_MF_AlphaFold2": "data/GO_MF/GO_MF_AlphaFold2_HF.json",
"GO_MF_ESMFold": "data/GO_MF/GO_MF_ESMFold_HF.json",
"GO_CC": "data/GO_CC/GO_CC_HF.json",
"GO_CC_AlphaFold2": "data/GO_CC/GO_CC_AlphaFold2_HF.json",
"GO_CC_ESMFold": "data/GO_CC/GO_CC_ESMFold_HF.json",
"MetalIonBinding": "data/MetalIonBinding/MetalIonBinding_HF.json",
"MetalIonBinding_AlphaFold2": "data/MetalIonBinding/MetalIonBinding_AlphaFold2_HF.json",
"MetalIonBinding_ESMFold": "data/MetalIonBinding/MetalIonBinding_ESMFold_HF",
"PaCRISPR": "data/PaCRISPR/PaCRISPR_HF.json",
"PETA_CHS_Sol": "data/PETA_CHS_Sol/PETA_CHS_Sol_HF.json",
"PETA_LGK_Sol": "data/PETA_LGK_Sol/PETA_LGK_Sol_HF.json",
"PETA_TEM_Sol": "data/PETA_TEM_Sol/PETA_TEM_Sol_HF.json",
"ProtSolM": "data/ProtSolM/ProtSolM_HF.json",
"ProtSolM_ESMFold": "data/ProtSolM/ProtSolM_ESMFold_HF.json",
"SortingSignal": "data/SortingSignal/SortingSignal_HF.json",
"SortingSignal_AlphaFold2": "data/SortingSignal/SortingSignal_AlphaFold2_HF.json",
"TAPE_Fluorescence": "data/TAPE_Fluorescence/TAPE_Fluorescence_HF.json",
"TAPE_Stability": "data/TAPE_Stability/TAPE_Stability_HF.json",
"Thermostability": "data/Thermostability/Thermostability_HF.json",
"Thermostability_AlphaFold2": "data/Thermostability/Thermostability_AlphaFold2_HF.json",
"Thermostability_ESMFold": "data/Thermostability/Thermostability_ESMFold_HF.json"
}
} |