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Open Access Highly Accessed Methodology article

MergeAlign: improving multiple sequence alignment performance by dynamic reconstruction of consensus multiple sequence alignments

Peter W Collingridge1 and Steven Kelly2345*

Author Affiliations

1 Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth, PL1 2PB, Devon, UK

2 Department of Plant Sciences, University of Oxford, South Parks Road, OX1 3RB, Oxford, UK

3 Centre for Mathematical Biology, Mathematical Institute, University of Oxford, 24-29 St Giles’, OX1 3LB, Oxford, UK

4 Oxford Centre for Interactive Systems Biology, Department of Biochemistry, University of Oxford, South Parks Road, OX1 3QU, Oxford, UK

5 Sir William Dunn School of Pathology, University of Oxford, South Parks Road, OX1 3RE, Oxford, UK

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BMC Bioinformatics 2012, 13:117  doi:10.1186/1471-2105-13-117

Published: 30 May 2012

Additional files

Additional file 1:

The MergeAlign python program.

Format: PY Size: 10KB Download file

Open Data

Additional file 2:

List of training set of benchmark alignments.

Format: TXT Size: 10KB Download file

Open Data

Additional file 3:

Mean F-score of training set for all 142 matrices of amino acid substitution.

Format: TXT Size: 2KB Download file

Open Data

Additional file 4:

List of test set of benchmark alignments.

Format: TXT Size: 10KB Download file

Open Data

Additional file 5:

Results for all tests of multiple sequence alignment performance.

Format: XLS Size: 13.4MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

Perl script for evaluating precision, recall, and F-score of multiple sequence alignments.

Format: PL Size: 5KB Download file

Open Data