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DeviumWeb specifications

Information


Unique identifier OMICS_27892
Name DeviumWeb
Alternative name Dynamic multivariatE data analysis and VIsUalization platforM
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Medium
Version 0.4
Stability Stable
Maintained Yes

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Maintainer


  • person_outline DAVe Team

DeviumWeb citations

 (8)
call_split

Obesogenic diets alter metabolism in mice

2018
PLoS One
PMCID: 5764261
PMID: 29324762
DOI: 10.1371/journal.pone.0190632
call_split See protocol

[…] of samples in each group. Statistical analysis was done by first normalizing data using the sum of the knowns, or mTIC normalization, to scale each sample. Peak heights were then submitted using R to DeviumWeb. The data was normalized further by log transformation and Pareto scaling. ANOVA analysis was performed with FDR correction and post hoc testing. PCA analysis was used for multivariate stati […]

call_split

Metabolomic characteristics of cholesterol induced non obese nonalcoholic fatty liver disease in mice

2017
Sci Rep
PMCID: 5522413
PMID: 28733574
DOI: 10.1038/s41598-017-05040-6
call_split See protocol

[…] Peak heights of identified and unknown metabolites from GC–TOF MS and CSH–QTOF MS [from both ESI(+) and ESI(−) modes] were submitted using R to DeviumWeb for multivariate data analysis and visualization. GC-TOF MS results were mean-centered and divided by the standard deviation of each variable (center: mean; normalization: unit variance). PC […]

library_books

From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics

2017
GigaScience
PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] apable of performing most of these functions, but also a variety of software tools exist that combine procedures relevant to metabolomics in a single pipeline, thus facilitating the workflow, such as DeviumWeb [], BioStatFlow [], MetaboLyzer [], metaP-Server [], Fusion [], Pathomx [], MSPrep [], MixOmics [], and Covariance Inverse (COVAIN) [].Other interesting and somehow more specialized tools in […]

library_books

Understanding the response to endurance exercise using a systems biology approach: combining blood metabolomics, transcriptomics and miRNomics in horses

2017
BMC Genomics
PMCID: 5316211
PMID: 28212624
DOI: 10.1186/s12864-017-3571-3

[…] the OPLS analysis, which integrates an orthogonal signal correction (OSC) to identify and characterize metabolic changes induced by endurance exercise. The OSC-correction approach was conducted using DeviumWeb R package; (https://github.com/dgrapov/DeviumWeb) [].By extracting variation from its computed partial least squares (PLS) components that is uncorrelated (orthogonal) to the responses, OPLS […]

library_books

Metabolomic Responses of Arabidopsis Suspension Cells to Bicarbonate under Light and Dark Conditions

2016
Sci Rep
PMCID: 5071901
PMID: 27762345
DOI: 10.1038/srep35778

[…] tistical analyses using statistical software R (Version 2.9.1, R Development Core Team 2007, https://www.r-project.org/) Logarithmic and median transformations of metabolite data were performed using DeviumWeb and MetaboAnalyst, and data were transformed, scaled, missing values imputed, and outlier removed before proceeding to uni- and multi-variate statistical analysis of the data. Raw processed […]

library_books

Metabolomic Responses of Guard Cells and Mesophyll Cells to Bicarbonate

2015
PLoS One
PMCID: 4671721
PMID: 26641455
DOI: 10.1371/journal.pone.0144206

[…] control (mock). At different time points (0, 5, 15, 30, 60, and 120 min.) an aliquot was removed for observation. The results are presented as means ± SE. Data were analyzed using one-way ANOVA using DeviumWeb []. A P-value < 0.05 was considered as statistically significant. […]

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