methylInheritance-package | methylInheritance: Permutation-Based Analysis associating Conserved Differentially Methylated Elements from One Generation to the Next to a Treatment Effect |
calculateSignificantLevel | Calculate significant level for hypo and hyper conserved elements |
demoForTransgenerationalAnalysis | The methylation information from samples over three generations. Information for each generation is stored in a 'methylRawList' format (for demo purpose). |
extractInfo | Extract the information specific to a subsection of the permutation analysis |
loadAllRDSResults | Load all RDS files created by the permutation and observation analysis |
loadConvergenceData | Load convergence information from RDS files |
mergePermutationAndObservation | Merge the permutation results with the observation results. |
methylInheritance | methylInheritance: Permutation-Based Analysis associating Conserved Differentially Methylated Elements from One Generation to the Next to a Treatment Effect |
methylInheritanceResults | All observed and permutation results formatted in a 'methylInheritanceResults' class (for demo purpose). |
plotConvergenceGraph | Generate a graph showing the convergence for a permutation analysis |
plotGraph | Generate a graph for a permutation analysis |
print.methylInheritanceAllResults | Print a 'methylInheritanceAllResults' object |
runObservation | Run a differential methylation analysis on multi-generational dataset |
runPermutation | Run all permutations on the specified multi-generational dataset |
samplesForTransgenerationalAnalysis | All samples information, formated by 'methylKit', in a 'methylRawList' format (for demo purpose). |