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TaxonGap 2.4.1 |
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The TaxonGap software version 2.4.1 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...") |
UPDATE information:
- Bug: optimization of resolving of similarity files
- Updated information in tutorial regarding formatting of OTU names
All update information can be found in the Documentation folder of the ZIP file.
Citations: List
Reference:
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers, Bioinformatics, 24(6), 866-867. Download |
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| last updated Thu 30 Jul 2009 14:00:00 |
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TaxonGap 2.4 |
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The TaxonGap software version 2.4 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...") |
UPDATE information:
- Bug: correction for parsing of pathovars, subspecies and other subdivisions of the taxonomic group 'species'
- Bug: Bounding Box automatically adjusted
- Summary file: all closest objects are reported, if more than 1 object is present with the same inter-species separability value
- Change of textfield for setting EPS file
- Similarity matrices may contain objects that are not present in the given tree or list (but will, however, not be displayed)
- Removal of white line indicating objects that are absent in the tree
All update information can be found in the Documentation folder of the ZIP file.
Reference:
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers, Bioinformatics, 24(6), 866-867. Download |
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| last updated Wed 7 Jan 2009 09:00:00 |
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TaxonGap 2.3 |
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The TaxonGap software version 2.3 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...") |
UPDATE information:
- Possibility of a list of OTUs (same format as OTUs in tree)
- Removal of parameter TROT (tree rotation)
- Parameter GOFF (gene offset) is replaced by BOFF (biomarker offset)
- CTRL- and ALT- shortcuts for menu-items
- Change of menu-items
- Adding/editing biomarkers: italic checkbox for automatic formatting, user format is still possible
- Reset parameters to default or previous parameter values when occurence of errors during loading settings
- Presence of filenames instead of paths as values of xml parameters: first check if path present, if no path: check by parameter fileLocation, if empty check by path of xml file
- Template filename 'TaxonGap_day-month-year_hourhminmsec.(eps/pdf/txt)' when no outputfile is defined.
- Update of the source-code: new classes for parsing
- Check of parameters when saving
- Automatical adjustment of the scale
- Solving problems of minor bugs
- ...
All update information can be found in the Documentation folder of the ZIP file.
Reference:
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers, Bioinformatics, 24(6), 866-867. Download |
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| last updated Wed 12 Nov 2008 14:00:00 |
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TaxonGap 2.2 |
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The TaxonGap software version 2.2 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...")
UPDATE information:
- The format of the name of the closest neighbour of each OTU is now automatically set as occuring in the tree file.
- Updated tutorial
Reference:
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers, Bioinformatics, 24(6), 866-867. Download |
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| last updated Mon 7 Jul 2008 11:30:00 |
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TaxonGap 2.1 |
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The TaxonGap software version 2.1 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...")
UPDATE information:
- New parameters added: BLNG or Branch Length Type
- Possibility for trifurcation of root node
- Change order biomarkers
- No requirement of quotation marks in tree file
- Error messages when using wrong xml-tags, similarity table formats and installation problems of Ghostscript and Ghostview
- Bug - display of node weights
- Bug - Set outputfile: add .eps extension to filename
- New outputfile with detailed TaxonGap results
- Updated tutorial
Reference:
B. Slabbinck, P. Dawyndt, M. Martens, P. De Vos and B. De Baets,
TaxonGap: a visualisation tool for intra- and inter-species variation among individual biomarkers, Bioinformatics, 24(6), 866-867. Download |
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| last updated Fri 4 Jul 2008 18:30:00 |
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TaxonGap 2.0.1 |
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The TaxonGap software version 2.0.1 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...")
UPDATE information:
- Similarity files: update to (tab|space)-separated values (Format: <object_name><tab><(space|tab)-separated similarity values>)
- Bug - Save settings: add .xml extension to filename
- Updated tutorial
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| last updated Mon 18 Feb 2008 18:00:00 |
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TaxonGap 2.0 |
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The TaxonGap software version 2.0 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...")
UPDATE information:
- Implementation of a graphical user interface
- Graphical output is saved as EPS and PDF
- Detailed information is provided for each operational taxonomic unit and for each biomarker
- Objects in similarity tables may be separated (species or objects should not be grouped in the similarity tables)
- Updated tutorial
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| last updated Thu 3 Jan 2008 00:00:00 |
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TaxonGap 1.0 |
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| The TaxonGap software version 1.0 and documentation can be downloaded as a ZIP-file by this link: Download (click right and choose "Save as...") |
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| last updated Thu 3 Jan 2008 00:00:00 |
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