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Table 2 Comparison of alignment quality by the different methods on different sets of alignment benchmarks measured using the average SP score

From: Protein embedding based alignment

 

PEbA_ProtT5

PEbA_ESM2

BLOSUM62

DEDAL

vcMSA

RV11

0.590

0.336

0.220

0.413

0.559

RV12

0.844

0.715

0.626

0.648

0.828

RV911

0.461

0.242

0.276

0.092

0.437

RV912

0.755

0.633

0.594

0.377

0.685

RV913

0.940

0.900

0.874

0.203

0.922

  1. FATCAT is not shown in this table because it was tested only on RV11 where it achieved an average SP score of 0.603
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BMC Bioinformatics

ISSN: 1471-2105

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