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+Univariate parametric and non-parametric hypothesis testing with correction for multiple testing  
+================================================================================================  
+
+A Galaxy module from the [Workflow4metabolomics](http://workflow4metabolomics.org) infrastructure    
+
+Status: [![Build Status](https://travis-ci.org/workflow4metabolomics/univariate.svg?branch=master)](https://travis-ci.org/workflow4metabolomics/univariate).
+
+### Description
+
+**Version:** 2.2.0   
+**Date:** 2016-10-30  
+**Author:** Marie Tremblay-Franco (INRA, MetaToul, MetaboHUB, W4M Core Development Team) and Etienne A. Thevenot (CEA, LIST, MetaboHUB, W4M Core Development Team)    
+**Email:** [marie.tremblay-franco(at)toulouse.inra.fr](mailto:[e-mail]); [etienne.thevenot(at)cea.fr](mailto:[e-mail])  
+**Citation:** Thevenot E.A., Roux A., Xu Y., Ezan E. and Junot C. (2015). Analysis of the human adult urinary metabolome variations with age, body mass index and gender by implementing a comprehensive workflow for univariate and OPLS statistical analyses. *Journal of Proteome Research*, **14**:3322-3335. [doi:10.1021/acs.jproteome.5b00354](http://dx.doi.org/10.1021/acs.jproteome.5b00354)  
+**Reference history:** [W4M00001a_sacurine-subset-statistics](http://galaxy.workflow4metabolomics.org/history/list_published), [W4M00004_mtbls1](http://galaxy.workflow4metabolomics.org/history/list_published)  
+**Licence:** CeCILL  
+**Funding:** Agence Nationale de la Recherche ([MetaboHUB](http://www.metabohub.fr/index.php?lang=en&Itemid=473) national infrastructure for metabolomics and fluxomics, ANR-11-INBS-0010 grant)
+
+### Installation
+
+ * Configuration file: `univariate_config.xml`  
+ * Image file: 
+  + `static/images/univariate_workflowPositionImage.png`   
+ * Wrapper file: `univariate_wrapper.R`  
+ * Script file: `univariate_script.R`  
+ * R packages  
+  + **batch** from CRAN  
+  
+    ```r
+    install.packages("batch", dep=TRUE)  
+    ```
+  + **PMCMR** from CRAN  
+  
+    ```r  
+    install.packages("PMCMR", dep=TRUE)  
+    ```    
+ 
+### Tests
+
+The code in the wrapper can be tested by running the `runit/univariate_runtests.R` R file
+
+You will need to install **RUnit** package in order to make it run:
+```r
+install.packages('RUnit', dependencies = TRUE)
+```
+
+### Working example  
+
+See the **W4M00001a_sacurine-subset-statistics**, **W4M00001b_sacurine-subset-complete**, **W4M00002_mtbls2**, **W4M00003_diaplasma** shared histories in the **Shared Data/Published Histories** menu (https://galaxy.workflow4metabolomics.org/history/list_published)  
+
+### News
+
+###### CHANGES IN VERSION 2.2.0  
+
+MAJOR MODIFICATION  
+
+ * ANOVA and Kruskal-Wallis: The p-values of the post-hoc tests (i.e. from pairwise comparisons) are now further corrected for multiple testing over all variables (previously, only the p-value of the -first- omnibus test was corrected over all variables)  
+
+MINOR MODIFICATION  
+
+ * All values in the 'dif', adjusted p-value, and 'sig' columns are now displayed (previously, the values were set to NA when the p-value of the omnibus test was not significant)  
+
+NEW FEATURE  
+
+ * Graphic: a single pdf file containing the graphics of all significant tests is now produced as '_figure.pdf' output: boxplots (respectively scatterplots with the regression line in red and the R2 value) are displayed when the factor of interest is qualitative (respectively quantitative). The corrected p-value is indicated in the title of each plot  
+
+###### CHANGES IN VERSION 2.1.4
+
+NEW FEATURE  
+
+ * Level names are now separated by '.' instead of '-' previously in the column names of the output variableMetadata table (e.g., 'jour_ttest_J3.J10_fdr' instead of 'jour_ttest_J3-J10_fdr' previously)  
+
+INTERNAL MODIFICATION  
+
+ * Minor internal changes  
+
+###### CHANGES IN VERSION 2.1.2  
+
+INTERNAL MODIFICATION  
+
+ * Minor internal changes in .shed.yml for toolshed export
+
+###### CHANGES IN VERSION 2.1.1  
+
+INTERNAL MODIFICATION  
+
+ * Internal handling of 'NA' p-values (e.g. when intensities are identical in all samples).