Standardize and harmonize gene names

Harmonize gene identifiers across single-cell transcriptomics datasets

Cross-dataset gene alignment in single-cell RNA-seq when feature naming standards differ.

• · h5ad, .tsv, or .csv files with feature names; target species (human/mouse)

• · harmonization_table.tsv, summary.json, conflicts.tsv, unmapped.tsv, optional *_harmonized.h5ad

• · stangene (Python package), Ollama references (downloads ~15MB human, ~7MB mouse)

• · stangene installed
• · References built for target species
• · Species specified explicitly

• · Auto-resolved ambiguities without user approval
• · Overwriting original identifiers
• · Cross-species harmonization without per-species passes

• · Conservative merge optional (policy: strict or symbol)
• · Never auto-resolves — surfaces conflicts for user decision