bio-workflows-multi-omics-pipeline - Vertical bulk multi-omics integration workflow
Orchestrates vertical bulk multi-omics integration by harmonizing samples, selecting MOFA2, DIABLO, or SNF, interpreting results, and validating them in a held-out cohort.
Tags
Updated: 2026-10-16Capabilities
Typical Inputs
What this skill does
- Confirm vertical sample correspondence
- Join samples by stable keys
- Normalize each omic separately
- Equalize per-view variance
- Route to MOFA2, DIABLO, or SNF
- Interpret factors and signatures
- Validate in held-out cohorts
Inputs
- Bulk RNA data
- Protein data
- Methylation data
- Stable sample primary keys
- Sample metadata
- Integration objective
- Held-out cohort
- Installed R packages
Outputs
- Integrated latent factors
- Predictive signatures
- Patient subtypes
- Per-view variance-explained tables
- Factor and signature interpretations
- Held-out validation results
Requirements
- R environment
- Compatible MOFA2, mixOmics, and SNFtool versions
- Multi-omics integration component skills