ProtCompass_Embeddings / extract /encoder_atom_audit.csv
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encoder,n_proteins,rel_change_N,rel_change_CA,rel_change_C,rel_change_O,rel_change_CB,rel_change_scale,reads_N,reads_CA,reads_C,reads_O,reads_CB,reads_scale,atom_set,seconds
cdconv,32,6.774384786467635e-08,0.0018998039886355,6.913799666108389e-08,6.602449076353878e-08,6.901344917764618e-08,0.0104988375678658,False,True,False,False,False,True,CA,25.5
dimenet,32,0.0,0.0032892703800662,0.0,0.0,0.0,0.0009088480624731,False,True,False,False,False,False,CA,2.6
egnn,32,0.0,1.660820435899683e-07,0.0,0.0,0.0,2.9970332018882693e-07,False,False,False,False,False,False,none,1.9
esm3,32,0.2908245074705586,0.4757933445565401,0.3892363353263504,0.0,0.0,0.1834084744439492,True,True,True,False,False,True,N+CA+C,26.9
esm_if1,32,1.617953810324722,1.8931886118402776,1.6957476790568904,4.396234280273364e-07,4.419276092306397e-07,0.735736516745072,True,True,True,False,False,True,N+CA+C,23.2
foldseek_3di,32,0.4385456989384051,0.5150908829347185,0.0,0.0,0.3205025822288332,0.0737696593231552,True,True,False,False,True,True,N+CA+CB,1.2
foldvision,32,0.5894940495491028,0.12603742256760597,0.17555972933769226,0.29704660177230835,0.1564348042011261,0.09418930485844612,True,True,True,True,True,True,N+CA+C+O+CB,43.5
gcpnet_pretrained,32,0.475220188498497,0.5025265961885452,0.5832570791244507,0.420015886425972,0.3913437277078628,0.2449181005358696,True,True,True,True,True,True,N+CA+C+O+CB,76.6
gcpnet_random,32,0.0215354841202497,0.041575064882636,0.028620290569961,0.0137048223987221,0.013561294414103,0.0152092888019979,True,True,True,True,True,True,N+CA+C+O+CB,89.4
gearnet,32,0.0,0.0695257894688739,0.0,0.0,0.0,0.019940392857356,False,True,False,False,False,True,CA,3.7
gearnet_pretrained,32,1.205299100387757e-07,0.7294581686559638,1.3222666173198824e-07,1.259058909728677e-07,1.28418670116726e-07,0.5247175621731865,False,True,False,False,False,True,CA,702.3
gvp,32,0.0071169915925589,0.0348490296571434,0.0064976234503525,7.52544870879544e-08,7.321879608031225e-08,0.0044378100596217,True,True,True,False,False,True,N+CA+C,3.6
ipa,32,1.6345880537896634e-07,0.1129163490595158,1.6649898432813358e-07,1.693812263269716e-07,1.6663332821455673e-07,0.0133687976381662,False,True,False,False,False,True,CA,3.6
ipa_pretrained,32,4.575980290623687e-07,0.3368533234334174,4.733880592686976e-07,4.64811501702706e-07,5.167129431033538e-07,0.0876182115036643,False,True,False,False,False,True,CA,3.4
mace,32,0.0,0.0155774656614395,0.0,0.0,0.0,0.0009781541237532,False,True,False,False,False,False,CA,2.6
pottsmpnn,32,0.0244431583175252,0.0450994539565457,0.0273395627470574,0.0216240185612649,0.0,0.0420944107144695,True,True,True,True,False,True,N+CA+C+O,3.5
pottsmpnn_ft,32,0.4777321878876763,0.5918739711748449,0.3699711793881092,0.3019687768078308,0.0,0.1695408329871583,True,True,True,True,False,True,N+CA+C+O,15.0
pottsmpnn_pretrained,32,0.4551977223826828,0.5654518795818348,0.3471120508651837,0.3226918549249141,0.0,0.1711427873722948,True,True,True,True,False,True,N+CA+C+O,8.1
pottsmpnn_soluble,32,0.6132824051134971,0.8487683188605559,0.4826223461030601,0.417302785569781,0.0,0.211170456221645,True,True,True,True,False,True,N+CA+C+O,11.0
proteinmpnn,32,0.0983741840486254,0.2159857414639129,0.1131486611294858,0.0712790701224267,0.0,0.0794919790785194,True,True,True,True,False,True,N+CA+C+O,3.4
saprot,32,0.5825642475200006,1.3275132801538123,0.0,0.0,0.632322785394394,0.0635380620510545,True,True,False,False,True,True,N+CA+CB,12.8
schnet,32,0.0,0.0271857476721018,0.0,0.0,0.0,0.0210326525588401,False,True,False,False,False,True,CA,3.7
tfn,32,1.0602364681519276e-07,0.042771900653447,1.0488956090678904e-07,1.038743616039146e-07,1.0581382604162661e-07,1.0676908831534525e-07,False,True,False,False,False,False,CA,3.3
tfn_pretrained,32,1.0089247154528637e-07,0.0428676433137295,9.387337418536293e-08,9.576469443033552e-08,9.862336938188949e-08,8.914602884050341e-08,False,True,False,False,False,False,CA,4.7