4 Using DIMet Galaxy

DIMet is now available in Galaxy Europe!

Visit us in https://usegalaxy.eu/

DIMet Galaxy is composed of several modules, each one has its own user guide. You can find each module easily by typing its name in the "Tools" field on the site's left panel (see the end of this page). Here we give to the user a general description about these modules.

Modules for data processing, producing tables:

• dimet_pca_analysis computes the PCA and outputs tables with principal components and explained variances
• dimet_differential_analysis runs pair-wise (2 groups) differential analysis and computes the corresponding statistics
• dimet_multi_group_comparison same as differential analysis before, but for > 2 groups
• dimet_timecourse_analysis runs differential analysis for time-course experiments in pairwise fashion for consecutive time points

Modules for visualizations:

• dimet_pca_plot generates classical PCA plots
• dimet_abundance_plot plots with bars of total metabolite abundancest, by metabolite
• dimet_enrichment_plot generates lineplots of mean enrichment, by metabolite
• dimet_isotopologues_plot generates stacked bars of isotopologue proportions, by metabolite

Module for integration of (tracer) metabolomics and transcriptomics

• dimet_metabologram pathway-based integration between labeled targeted metabolomic and trascriptomic data, resulting in metabologram plots

Each module has its own documentation in the DIMet Galaxy interface.

The input data for our DIMet Galaxy version

The input data for our DIMet Galaxy version is explained in each module.

The statistical tests

For comparing groups with DIMet the statistical tests are available at: 2 Statistical tests.

Further explanations and recommendations regarding the statistical tests are available in our Supplementary Material.

The output

The output follows the same format whether in Galaxy or in command line. See the section 3 Output

---