Man pages for bhattacharya-a-bt/MOSTWAS
Multi-Omic Strategies for Transcriptome-Wide Association Studies
| addedLastTest | Compute weighted burden test |
| adjR2 | Compute McNemar's adjusted R2 |
| amplifyTrans | Write out mediator-based trans-eSNP effects |
| burdenTest | Compute weighted burden test |
| computeTME | Compute total mediation effect |
| convertToDosage | Train and predict gene's predictive model with mediators |
| CVFitMediator | Fit a single split in cross-validation for a given biomarker |
| DePMA | Train and predict gene's predictive model with mediators... |
| eQTL_MOSTWAS | LD prune a genotype matrix |
| estimateHeritability | Estimate germline heritability of a biomarker |
| gatherMediators | Extract mediating biomarkers for a given gene |
| getCisGenotypes | Gather the cis-genotypes for a given biomarker |
| LDprune | LD prune a genotype matrix |
| mergeFinalModels | Output final MOSTWAS models |
| MeTWAS | Train and predict gene's predictive model with mediators... |
| permuteTME | Perform permutation test for the total mediation effect |
| regress | Generate summary statistics for genotype-trait association |
| RepParallel | Parallel implementation of replicate() |
| simBeta | Simulate eQTL effect sizes |
| simEQTL | Simulate eQTL reference panel |
| simGeno | Simulate genotypes from reference data |
| simGWAS | Simulate eQTL reference panel |
| simTrait | Simulate trait from latent genetic values |
| sobelTest | Compute total mediation effect |
| testTME | Run TME tests through a data.frame of mediators |
| trainDeP | Train and predict gene's predictive model with mediators... |
| trainExpression | Train and predict gene's predictive model with mediators... |
| trainLocalModel | Train a local-only model for a phenotype |
| trainMediator | Train and predict mediator predictive model |
| trainSNPPheno | Train a local-only model for a phenotype |
