bio-multi-omics-mofa-integration
Multi-Omics Factor Analysis (MOFA2) for unsupervised integration of multiple data modalities. Identifies shared and view-specific sources of variation. Use when integrating RNA-seq, proteomics, methylation, or other omics to discover latent factors driving biological variation across modalities.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-multi-omics-mofa-integration --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
## Version Compatibility Reference examples tested with: scanpy 1.10+ Before using code patterns, verify installed versions match. If versions differ: - R: `packageVersion('<pkg>')` then `?function_name` to verify parameters If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # MOFA2 Integration **"Find shared variation across my omics layers"** → Discover latent factors that capture shared and modality-specific sources of biological variation in an unsupervised manner. - R: `MOFA2::create_mofa()` → `prepare_mofa()` → `run_mofa()` - Python: `mofapy2` for training, `muon` for downstream ## Prepare Multi-Omics Data **Goal:** Load and align multiple omics matrices into a consistent format for MOFA2 input. **Approach:** Read each omics layer, intersect to common samples, transpose to features-by-samples orientation. ```r library(MOFA2) library(MultiAssayExperiment) # Load individual omics matrices (samples x features) rna <- as.matrix(read.csv('rnaseq_matrix.csv', row.names = 1)) protein <- as.matrix(read.csv('proteomics_matrix.csv', row.names = 1)) methylation <- as.matrix(read.c
- Version Compatibility
- Prepare Multi-Omics Data
- Create and Train MOFA Model
- Analyze Factors
- Visualize Results
- Factor Interpretation
- Add Sample Metadata
- Multi-Group MOFA
- MOFA+ for Single-Cell
- Export Results
- Related Skills
What does the bio-multi-omics-mofa-integration skill do?
Multi-Omics Factor Analysis (MOFA2) for unsupervised integration of multiple data modalities. Identifies shared and view-specific sources of variation. Use when integrating RNA-seq, proteomics, methylation, or other omics to discover latent factors driving biological variation across modalities.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-multi-omics-mofa-integration --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.