O2PLS Joint Analysis

O2PLS integrates a transcriptome and a metabolome dataset measured on the same samples, separating the variation they share (joint) from the variation specific to each. The tool ranks genes and metabolites by their contribution to the joint components and returns the selected features and their loadings as downloadable tables.

CSV: first column = gene_id, remaining columns = one per sample (header = sample names).
CSV: first column = Compound_ID, remaining columns = one per sample. Samples must correspond to the transcriptome file (an ionisation-mode prefix such as neg_ / pos_ is handled automatically).

Analysis Parameters

Shared transcriptome-metabolome components. Default 5.
How many top genes / metabolites to flag. Default 20.
Transcriptome-specific variation. Default 2.
Metabolome-specific variation. Default 1.
Defaults (n=5, nx=2, ny=1) reproduce the reference analysis. For a new dataset these can be chosen by cross-validation in OmicsPLS (crossval_o2m).

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