Description Usage Arguments Value Author(s) Examples
View source: R/methylInheritanceMethods.R
Merge the permutation results with the observation results.
The merging is only needed when permutation and observation have been
processed separately. The returned value is a
methylInheritanceAllResults
object that can be used by
the extractInfo
function.
1  mergePermutationAndObservation(permutationResults, observationResults)

permutationResults 
a 
observationResults 
a 
a list
of class methylInheritanceAllResults
with
2 entries. The 2 entries are:
PERMUTATION
list
with a number of entries corresponding
to the number of permutations that have been processed. Each entry contains
the result of one permutation.The elements in each entry are:
SITES
Only present when a sites analysis has been achieved,
a list
containing:
i2
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated sites between two consecutive generations.
The first element represents the intersection of the first and second
generations; the second element, the intersection of the second and third
generations; etc.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated sites between two consecutive generations.The
first element represents the intersection of the first and second
generations; the second element, the intersection of the second and third
generations; etc.
iAll
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated sites between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc.The number of entries depends on the number
of generations.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated sites between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc. The number of entries depends on the number of
generations.
TILES
Only present when a tiles analysis has been achieved,
a list
containing:
i2
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated positions between two consecutive
generations. The first element represents the intersection of the
first and second generations; the second element, the intersection of
the second and third generations; etc.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated positions between two consecutive
generations.The first element represents the intersection of the first and
second generations; the second element, the intersection of the second
and third generations; etc.
iAll
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated positions between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc. The number of entries depends on the number
of generations.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated positions between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc.The number of entries depends on the number of
generations.
OBSERVATION
a list
containing
the result obtained with the observed dataset (not shuffled). The
elements are:
SITES
Only present when a sites analysis has been achieved,
a list
containing:
i2
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated sites between two consecutive generations.
The first element represents the intersection of the first and second
generations; the second element, the intersection of the second and third
generations; etc.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated sites between two consecutive generations.The
first element represents the intersection of the first and second
generations; the second element, the intersection of the second and third
generations; etc.
iAll
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated sites between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc.The number of entries depends on the number
of generations.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated sites between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc. The number of entries depends on the number of
generations.
TILES
Only present when a tiles analysis has been achieved,
a list
containing:
i2
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated positions between two consecutive
generations. The first element represents the intersection of the
first and second generations; the second element, the intersection of
the second and third generations; etc.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated positions between two consecutive
generations.The first element represents the intersection of the first and
second generations; the second element, the intersection of the second
and third generations; etc.
iAll
a list
containing:
HYPER
a list
of integer
, the number of conserved
hyper differentially methylated positions between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc. The number of entries depends on the number
of generations.
HYPO
a list
of integer
, the number of conserved
hypo differentially methylated positions between three or more consecutive
generations. The first element represents the intersection of the first
three generations; the second element, the intersection of the first fourth
generations; etc.The number of entries depends on the number of
generations.
Astrid Deschenes, Pascal Belleau
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23  ## Create a observation result
observed < list()
observed[["OBSERVATION"]] < list()
observed[["OBSERVATION"]][["SITES"]] < list()
observed[["OBSERVATION"]][["SITES"]][["i2"]] < list(HYPER = list(11, 10),
HYPO = list(13, 12))
observed[["OBSERVATION"]][["SITES"]][["iAll"]] < list(HYPER = list(1),
HYPO = list(3))
## Create a permutation result containing only 1 permutation result
## Real perumtations results would have more entries
permutated < list()
permutated[["PERMUTATION"]] < list()
permutated[["PERMUTATION"]][[1]] < list()
permutated[["PERMUTATION"]][[1]][["SITES"]] < list()
permutated[["PERMUTATION"]][[1]][["SITES"]][["i2"]] < list(HYPER =
list(11, 12), HYPO = list(8, 11))
permutated[["PERMUTATION"]][[1]][["SITES"]][["iAll"]] < list(HYPER =
list(0), HYPO = list(1))
## Merge permutation and observation results
mergePermutationAndObservation(permutationResults = permutated,
observationResults = observed)

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