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Open Access Methodology article

Genome sequence-based species delimitation with confidence intervals and improved distance functions

Jan P Meier-Kolthoff1, Alexander F Auch2, Hans-Peter Klenk1 and Markus Göker1*

Author Affiliations

1 Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany

2 Eberhard-Karls-Universität, Tübingen, Germany

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BMC Bioinformatics 2013, 14:60  doi:10.1186/1471-2105-14-60

Published: 21 February 2013

Additional files

Additional file 1:

Empirical data sets. CSV file holding the empirical data sets used in this study. The file can be accessed with spreadsheet programs (e.g., Excel, OpenOffice or LibreOffice) or any given text editor.

Format: CSV Size: 19KB Download file

Open Data

Additional file 2:

Overview on the examined GBDP input parameters. PDF file holding a table about all GBDP settings/input parameters tested in this study.

Format: PDF Size: 29KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

All distance formulae used by GBDP. PDF file holding a table with all distance formulas implemented in GBDP.

Format: PDF Size: 29KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

Results of the correlation analysis. Spreadsheet in Open Document Format (ODS) that can be accessed via common spreadsheet programs (e.g., Excel, OpenOffice or LibreOffice). The Spreadsheet contains several tabs, each one holding the results for the data sets DS1-DS4 (see Materials and Methods).

Format: ODS Size: 444KB Download file

Open Data

Additional file 5:

Input for the multiple linear regression analysis. Spreadsheet in Open Document Format (ODS) that can be accessed via common spreadsheet programs (e.g., Excel, OpenOffice or LibreOffice). The Spreadsheet contains the input data required for reproducing the multiple linear regression analysis.

Format: ODS Size: 126KB Download file

Open Data

Additional file 6:

Additional figures. PDF file holding all figures that did not fit in the main manuscript, although these help to further elucidate the study and its results.

Format: PDF Size: 1.2MB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 7:

DDH prediction-based intergenomic distances. CSV file holding sample DDH predictions under different statistical models as analyzed in this study. The file can be accessed with spreadsheet programs (e.g., Excel, OpenOffice or LibreOffice) or any given text editor.

Format: CSV Size: 55KB Download file

Open Data