This is GOmixer version 1.7.5.0.

GOmixer was supported by the Fund for Scientific Research - Flanders and was developed at the Raes lab, Belgium.

Youssef Darzi, Gwen Falony, Sara Silva, Jeroen Raes. GOmixer: an online tool for gut meta-omics data analysis and visualization, (In preparation).

Youssef Darzi, Gwen Falony, Sara Silva, Jeroen Raes. Towards biome-specific analysis of meta-omics data, The ISME journal, 2015.

Sara Vieira-Silva, Gwen Falony, Youssef Darzi, Gipsi Lima-Mendez, Roberto Garcia Yunta, Shujiro Okuda, Doris Vandeputte, Mireia Valles-Colomer, Falk Hildebrand, Samuel Chaffron, Jeroen Raes. Species-function relationships shape ecological properties of the human gut microbiome, Nature Microbiology, 2016.

Version 1.7.5.0 (2018-06-14)

• Addition of a drop down to select Median or Mean as estimator for module abundance. By default Median is selected. In previous versions the Mean was used.

Version 1.7.4.0 (2018-05-31)

• Improvement of module score calculation. Median and Average are based on the number of observed steps instead of all steps.

Version 1.7.3.3 (2018-05-11)

• Updated contact information
• Updated mail server configuration after some registration emails failed to deliver.

Version 1.7.3.2 (2016-12-16)

• Bug fix: better handling of malformed input data

Version 1.7.3.1 (2016-10-21)

• Bug fix: Analysis results page was not displaying for function only datasets and for datasets analyzed prior to version 1.7!
• Minor improvement in the display of result tables

Changes in version 1.7.3 (2016-10-04)

• Updated the module inference form to show the option for automatic selection of an optimal module coverage cutoff
• Minor improvements in the layout and navigation

Changes in version 1.7.2 (2016-09-30)

• Added and option to automate the selection of an optimal coverage cutoff during module prediction
• Added the module coverage plots to the module prediction page
• Optimal coverage is highlighted on the module coverage plot

Changes in version 1.7.1 (2016-09-27)

• Enabled upload of compressed (gzip, zip) datasets
• Added onclick information for compounds on the module metabolic map
• Minor performance improvement

Changes in version 1.7 (2016-09-23)

• Added a module coverage plot to assess if the chosen module coverage cutoff is acceptable, or to find the best coverage (This will be automated in the next release)
• Replaced Diversity plots by Observed Richness plots (Also replaced the scatter plot by a boxplot)
• Added more control buttons on the Job view page
• Added a table listing for the modules on module set pages

Version 1.6.1 (2016-02-15)

• Bug fix: Corrected module inference export to sum modules instead of taking last seen value and to show taxonomic information in row names
• Bug fix: Download buttons on module inference browser were only activated for the first page of the display table. Now it is activated for all pages

Changes in version 1.6 (2015-12-15)

• Added diversity plots (Shannon Index) to comparative analysis.
• Added a table to show module hierarchy test results
• Updated the workflow in the help section to reflect new features (K-Way comparison, scaling, triplots)
• Several minor bug fixes/improvements

Changes in version 1.5 (2015-08-19)

• Implemented multiple group (K-way) comparative analysis based on Kruskal-Wallis rank sum test
• Fixed the Triplots as this feature stopped working properly two weeks after the server is restarted (This is an experimental fix)
• Added a small description for the module database

Changes in version 1.4 (2015-06-12)

• Added description and more info on the browsing pages for module inference and triplots
• Fixed the demo login to show the Register form after demo user logs in
• Added per sample browsing, visualization and download of inferred modules
• Improved webapp performance by adding compression and caching of JavaScript and CSS
• Fixed the scaling function in comparative analysis: Inversed the numerator and the denominator to have the correct scaling factor

Changes in version 1.3 (2015-05-06)

• Updated the selection of Grouping factor levels (right/left group) in Comparative analysis to hide selected options from drop-down lists. This avoids multiple inclusions of the same level in a Comparative analysis, which was causing an error during the analysis. More informative error code is also given in case this still happens.
• Improved the help for metabolic maps exploration.
• Minor bug fixes and layout improvements.

Changes in version 1.2 (2015-04-24)

• Added the possibility to standardize the data (scaling or proportion).
• Fixed the module inference step to take into account the coverage cutoff.
• Increased the font-size on the metabolic map.