Mercurial > repos > ethevenot > univariate
comparison README.md @ 0:ef64d3752050 draft
planemo upload for repository https://github.com/workflow4metabolomics/univariate.git commit ca0e312e1c986c45310f37effe031f60009fbcab
| author | ethevenot |
|---|---|
| date | Wed, 27 Jul 2016 11:44:34 -0400 |
| parents | |
| children | fdefbc780d2e |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:ef64d3752050 |
|---|---|
| 1 # Univariate parametric and non-parametric hypothesis testing with correction for multiple testing | |
| 2 | |
| 3 A Galaxy module from the [Workflow4metabolomics](http://workflow4metabolomics.org) project. | |
| 4 | |
| 5 Status: [](https://travis-ci.org/workflow4metabolomics/univariate). | |
| 6 | |
| 7 ## Description | |
| 8 | |
| 9 **Version:** 2.1.1 | |
| 10 **Date:** 2015-09-30 | |
| 11 **Author:** Marie Tremblay-Franco (INRA, MetaToul, MetaboHUB, W4M Core Development Team) and Etienne A. Thevenot (CEA, LIST, MetaboHUB, W4M Core Development Team) | |
| 12 **Email:** [marie.tremblay-franco(at)toulouse.inra.fr](mailto:marie.tremblay-franco@toulouse.inra.fr); [etienne.thevenot(at)cea.fr](mailto:etienne.thevenot@cea.fr) | |
| 13 **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) | |
| 14 **Reference history:** [W4M00001a_sacurine-subset-statistics](http://galaxy.workflow4metabolomics.org/history/list_published), [W4M00004_mtbls1](http://galaxy.workflow4metabolomics.org/history/list_published) | |
| 15 **Licence:** CeCILL | |
| 16 **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) | |
| 17 | |
| 18 ## Installation | |
| 19 | |
| 20 * Configuration file: **univariate_config.xml** | |
| 21 * Image file: | |
| 22 + **static/images/univariate_workflowPositionImage.png** | |
| 23 * Wrapper file: **univariate_wrapper.R** | |
| 24 * Script file: **univariate_script.R** | |
| 25 * R packages | |
| 26 + **batch** from CRAN: `install.packages("batch", dep=TRUE)`. | |
| 27 + **PMCMR** from Bioconductor: `install.packages("PMCMR", dep=TRUE)`. | |
| 28 | |
| 29 ## Tests | |
| 30 | |
| 31 The code in the wrapper can be tested by running the **tests/univariate_tests.R** in R | |
| 32 | |
| 33 ## News | |
| 34 | |
| 35 ## CHANGES IN VERSION 2.1.1 | |
| 36 | |
| 37 * Internal handling of 'NA' p-values (e.g. when intensities are identical in all samples). |