Man pages for methylInheritance
Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multiple Generations to a Treatment Effect
| calculateSignificantLevel | Calculate significant level for hypo and hyper conserved... |
| createDataStructure | Extract the number of conserved differentially methylated... |
| createOutputDir | Create directories that will contained the results of the... |
| demoForTransgenerationalAnalysis | The methylation information from samples over three... |
| extractInfo | Extract the information specific to a subsection of the... |
| formatInputMethylData | Permute dataset |
| getGRangesFromMethylDiff | Transform results from a CpG site or region analysis done on... |
| interGeneration | Calculate the intersection of the differentially methylated... |
| isInterGenerationResults | Verify if a specific file containing intergenerational... |
| loadAllRDSResults | Load all RDS files created by the permutation and observation... |
| loadConvergenceData | Load convergence information from RDS files |
| mergePermutationAndObservation | Merge the permutation results with the observation results. |
| methylInheritanceAllResults | Print a 'methylInheritanceAllResults' object |
| methylInheritance-package | methylInheritance: Permutation-Based Analysis associating... |
| methylInheritanceResults | All observed and permutation results formatted in a... |
| plotConvergenceGraph | Generate a graph showing the convergence for a permutation... |
| plotGraph | Generate a graph for a permutation analysis |
| readInterGenerationResults | Read and return intergenerational results contained in a RDS... |
| runObservation | Run a differential methylation analysis on multi-generational... |
| runOnePermutationOnAllGenerations | Run the analysis on one permutation dataset, including all... |
| runPermutation | Run all permutations on the specified multi-generational... |
| samplesForTransgenerationalAnalysis | All samples information, formated by 'methylKit', in a... |
| saveInterGenerationResults | Save the result of on CpG site or tile analysis on all... |
| validateExtractInfo | Validation of some parameters of the 'extractInfo' function |
| validateLoadConvergenceData | Validation of some parameters of the 'loadConvergenceData'... |
| validateMergePermutationAndObservation | Validation of some parameters of the... |
| validateRunObservation | Validation of some parameters of the 'runObservation'... |
| validateRunPermutation | Parameters validation for the 'runPermutation' function |
