demoForTransgenerationalAnalysis {methylInheritance} | R Documentation |
methylRawList
format (for demo purpose).The object is a list
with 3 entries. Each entry corresponds to the
information for one generation (first entry = first generation, etc..)
stored in a methylRawList
object.
There are 12 samples (6 controls and 6 cases) for each generation. Each
sample information is stored in a methylRaw
object.
data(demoForTransgenerationalAnalysis)
A list
containing three methylRawList
objects. Each
methylRawList
contains the information for one generation
(first entry = first generation, etc..). Each sample information is
stored in a methylRaw
object. There is methylRaw
objects
(6 controls and 6 cases) in each generation.
This dataset can be used to test runPermutation
and
runObservation
functions.
A list
containing three methylRawList
objects. Each
methylRawList
contains the information for one generation
(first entry = first generation, etc..). Each sample information is
stored in a methylRaw
object. There is methylRaw
objects
(6 controls and 6 cases) in each generation.
runPermutation
for running a
permutation analysis, and optionally an observation analysis,
using multi-generational dataset
runObservation
for running an
observation analysis using methylKit info entry
## Loading dataset data(demoForTransgenerationalAnalysis) ## Run a permutation analysis runObservation(methylKitData = demoForTransgenerationalAnalysis, outputDir = "test_demo", type = "tiles", vSeed = 2001) ## Get results result <- loadAllRDSResults(analysisResultsDir = "test_demo", permutationResultsDir = NULL, doingSites = FALSE, doingTiles = TRUE) ## Remove result directory if (dir.exists("test_demo")) { unlink("test_demo", recursive = TRUE) }