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Table 7 Alignment based results

From: Compression-based classification of biological sequences and structures via the Universal Similarity Metric: experimental assessment

 

UPGMA

NJ

salign-CK-36-PDB-BLOSUM62-local

0.9849

0.7677

salign-CK-36-PDB-PAM120-global

0.9533

0.8556

salign-SP-86-PDB-BLOSUM62-local

0.5391

0.5481

salign-SP-86-PDB-PAM120-global

0.5488

0.5491

cor-word-1-CK-36-PDB

0.5600

0.5718

cor-word-2-CK-36-PDB

0.5837

0.5837

cor-word-3-CK-36-PDB

0.5117

0.5616

cor-word-1-SP-86-PDB

0.5447

0.5356

cor-word-2-SP-86-PDB

0.5319

0.5265

cor-word-3-SP-86-PDB

0.5392

0.5292

  1. Experimental results for the CK-36-PDB and the SP-86-PDB data sets, with different alternative methods to build distance matrices, that is, global and local alignments as well as k-tuple statistics and correlations. For each distance matrix associated to a method, we report the F-measure for both UPGMA and NJ methods.
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BMC Bioinformatics

ISSN: 1471-2105

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