v2.0.0 — Extended covariate analyses

What's New

Extended Analyses

• Viral load stratification: High vs low Ct differential expression with ISG dose-response correlation (Script 10)
• Sex-stratified interaction model: condition x gender interaction effects identifying sex-biased genes (Script 11)

Key Results

• 1,510 DE genes between high/low viral load groups
• 12 genes with significant condition x sex interaction (9 male-biased, 3 female-biased)
• ISG dose-dependent gradient confirmed across viral load strata

Infrastructure

• Cross-platform numeric tolerance for CI reproducibility
• Updated KEGG pathway database compatibility
• All linting issues resolved

PRs Merged

• #3: Add viral load stratification and sex-stratified interaction analyses
• #4: Rename Novel to Extended in script comments
• #5: Fix lint spacing in expression operators
• #6: Update KEGG pathway table for current database version
• #7: Widen numeric tolerance for cross-platform reproducibility
• #8: Bump tolerance to 1e-3 for cross-platform p-value drift