Man pages for YosefLab/MPRAnalyze
Statistical Analysis of MPRA data
| analyzeComparative | Run a comparative analysis between conditions |
| analyzeQuantification | Perform quantitative analysis on the MPRA data. This analysis... |
| ChrEpi | Sample MPRA data |
| estimateDepthFactors | estimate library size correction factors |
| extractModelParameters | extract the DNA model parameters |
| getAlpha | return the fitted value for the transcription rate. |
| getDistrParam | Get model distribution parameters from an MpraObject of a... |
| getFits_DNA | Get DNA model-based estimates from an MpraObject (the... |
| getFits_RNA | Get RNA model-based estimates from an MpraObject (the... |
| MpraObject | MpraObject |
| setDepthFactors | Manually set library depth correction factors |
| setModel | Set the distributional model used. Default is gamma.pois, and... |
| simulateMPRA | Simulate an MPRA dataset |
| testCoefficient | Calculate the significance of a factor in the regression... |
| testEmpirical | test for significant activity (quantitative analysis) using... |
| testLrt | Calculate likelihood ratio test for the specific nested model |
