Man pages for tpq/propr
An R package to calculate proportionality and other measures for compositional data
| aldex2propr | Import 'ALDEx2' Object |
| as_safe_matrix | Ensure Matrix Has Dim Names |
| basis_shrinkage | Covariance Shrinkage and Partial Correlation Calculation |
| binTab | Tabulate Overlap |
| calculateOR | Calculate Odds Ratio |
| calculate_theta | Calculate Theta and Related Statistics |
| compute_iqlr | Compute IQLR (Interquartile Range Log Ratio) Features |
| getFDR | Calculate Odds Ratio FDR |
| getMatrix | Get Matrix from Object |
| getOR | Calculate Odds Ratio |
| getRatios | Get (Log-)ratios from Object |
| getResults | Get Results from Object |
| index_reference | Index Reference for Selecting Features |
| logratio | Perform log-ratio transformation |
| logratio_with_alpha | Perform log-ratio transformation with alpha parameter |
| logratio_without_alpha | Perform log-ratio transformation without alpha parameter |
| marg.abs | Example Absolute mRNA |
| packageCheck | Package Check |
| permuteOR | Permute Odds Ratio |
| progress | Make Progress Bar |
| propd | The propd Method |
| propr | The propr Package |
| ratios | Recast Matrix as Feature (Log-)Ratios |
| runCutoff | Calculate a theta Cutoff |
| runGraflex | Permute FDR for Multiple Concepts |
| runNormalization | Get Per-Feature Theta |
| runPostHoc | Perform Post-Hoc Testing |
| search_tree | Search Tree Function |
| selectRatios | Pairwise Ratio Selection |
| selectReference | Select Optimal Reference Component |
| simple_zero_replacement | Simple Zero Replacement in a Count Matrix |
| updateCutoffs | Update FDR by Permutation |
| updatePermutes | Create permuted data |
