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Table 2 Mean ROC and ROC50 scores of related methods on the SCOPe independent dataset

From: Protein remote homology detection based on bidirectional long short-term memory

Method

Mean ROC

Mean ROC50

HHblitsa

0.725

0.443

Hmmerb

0.556

0.145

PSI-BLASTc

0.668

0.096

ProtDec-LTRd

0.742

0.445

ProDec-BLSTM

0.970

0.714

  1. athe command line of HHblits is ‘-e 1 -p 0 -E inf -Z 10000 -B 10000 -b 10000’
  2. bThe parameters of Hmmer are set as default
  3. cThe paramters of PSI-BLAST are set as default
  4. dThe above three alignment-based methods are combined by ProDec-LTR. The model is trained with SCOP benchmark dataset (Eq. 1)
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BMC Bioinformatics

ISSN: 1471-2105

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