API for scottzijiezhang/RADAR
RADAR
| Global functions | |
|---|---|
| .CountReadsBatch | Source code |
| .countBam | Source code |
| .countReadFromBam | Source code |
| .fishersMethod | Source code |
| .getGeneModelAnno | Source code |
| .getPeakBins | Source code |
| .groupMeanFilter | Source code |
| .noZero | Source code |
| .peakExons | Source code |
| .reportPeaks | Source code |
| DESeq2 | Man page Source code |
| Fisher_information | Source code |
| Fisher_information_one_beta | Source code |
| LogLikelihood_beta_psi_mu2 | Source code |
| LogLikelihood_for_individual_sample | Source code |
| LogLikelihood_multiple_beta_psi_mu2 | Source code |
| PoissionGamma | Source code |
| PoissionGamma_FISHER | Source code |
| PoissionGamma_multiple_beta | Source code |
| PrepCoveragePlot,MeRIP-method | Man page |
| adjustExprLevel,MeRIP.RADAR-method | Man page |
| coordinate_descent_for_individual_sample | Source code |
| correct_individual_sample | Source code |
| countIntronReads | Man page Source code |
| countReads | Man page Source code |
| countReadsCarRNA | Source code |
| diffIP | Man page |
| diffIP_parallel | Man page |
| edgeR | Man page Source code |
| extractIP,MeRIP.RADAR-method | Man page |
| extractInput,MeRIP.RADAR-method | Man page |
| filterBins,MeRIP.RADAR-method | Man page |
| geneBins,MeRIP-method | Man page |
| geneExpression | Man page |
| geneExpressionTMP | Man page |
| getAllCoverage | Source code |
| getAveCoverage | Source code |
| getCov | Source code |
| gradient_and_LogLikelihood_for_individual_sample | Source code |
| gradient_beta_psi_mu2 | Source code |
| gradient_descent_alt | Source code |
| gradient_descent_beta_psi_mu2 | Source code |
| gradient_descent_for_individual_sample | Source code |
| gradient_descent_multiple_beta_psi_mu2 | Source code |
| gradient_multiple_beta_psi_mu2 | Source code |
| gtfToGeneModel | Man page Source code |
| log_factorial | Source code |
| log_factorial_calculated | Source code |
| makeMeRIPfromList | Source code |
| new_initialization_of_parameters | Source code |
| new_initialization_of_parameters2 | Source code |
| normalizeLibrary,MeRIP-method | Man page |
| peakDistribution | Man page |
| plotGeneCov,MeRIP.RADAR-method | Man page |
| plotGeneCoverage | Man page Source code |
| plotGeneCoverageSplit | Man page Source code |
| plotHeatMap | Man page |
| plotPCA.DESeq2 | Source code |
| plotPCAfromMatrix | Man page Source code |
| plotTPM | Man page Source code |
| reportResult,MeRIP.RADAR-method | Man page |
| results | Man page |
| select | Man page |
| select_stepsize_for_a_parameter | Source code |
| select_stepsize_for_beta | Source code |
| select_stepsize_for_mu2 | Source code |
| select_stepsize_for_mu2_with_multiple_beta | Source code |
| select_stepsize_for_multiple_beta | Source code |
| select_stepsize_for_psi | Source code |
| select_stepsize_for_psi_with_multiple_beta | Source code |
