saveInterGenerationResults {methylInheritance} | R Documentation |
Save the result of on CpG site or tile analysis on all generations. The results are saved in a RDS file. The anaysis can have been done on the observed or shuffled dataset. Each permutation is saved using its identifiant in the file name.
saveInterGenerationResults( outputDir, permutationID, type = c("sites", "tiles"), interGenerationResult )
outputDir |
a string of |
permutationID |
an |
type |
One of the |
interGenerationResult |
a |
0
indicating that all parameters validations have been
successful.
Astrid Deschenes, Pascal Belleau
## Load permutation results on sites permutationResultsFile <- system.file("extdata", "permutationResultsForSites.RDS", package="methylInheritance") permutationResults <- readRDS(permutationResultsFile) ## Transform result to GRanges resultsGR <- methylInheritance:::getGRangesFromMethylDiff(methDiff = permutationResults, pDiff = 10, qvalue = 0.01, type = "hyper") ## Extract inter-generationally conserved sites interGenerationResult <- methylInheritance:::interGeneration(resultsGR) ## Create directories dir.create("TEST", showWarnings = TRUE) dir.create("TEST/SITES", showWarnings = TRUE) ## Save results methylInheritance:::saveInterGenerationResults( outputDir = "TEST/", permutationID=100, type = "sites", interGenerationResult = interGenerationResult)