HmmSnpSet-class {VanillaICE} | R Documentation |
Objects can be created by calls of the form new("HmmSnpSet",
assayData, featureData, phenoData, experimentData, annotation, calls,
callsConfidence, copyNumber, cnConfidence, predictions, scaleCopyNumber,
probabilityCalledHomIfNormal, probabilityCalledHetIfLoh, log2,
locationCopyNumber, stateNames, ...)
.
locationCopyNumber
:"numeric"
scaleCopyNumber
:"NullOrMatrix"
log2
:"logical"
predictions
:"matrix"
distance
:"logical"
initialStateProbability
:"NullOrNumeric"
transitionProbability
:"NullOrNumericOrMatrix"
emissionProbability
:"NullOrMatrix"
likelihood
:"NullOrMatrix"
chromosomeArm
:"character"
callsIce
:"logical"
copyNumberIce
:"logical"
stateNames
:"character"
chromosomeAnnotation
:"data.frame"
assayData
:"AssayData"
phenoData
:"AnnotatedDataFrame"
featureData
:"AnnotatedDataFrame"
experimentData
:"MIAME"
annotation
:"character"
.__classVersion__
:"Versions"
probabilityCalledHomIfNormal
:"numeric"
probabilityCalledHetIfLoh
:"numeric"
Class HmmSnpCopyNumberSet-class
, directly.
Class HmmSnpCallSet-class
, directly.
Class hSet-class
, by class "HmmSnpCopyNumberSet", distance 2.
Class AnnotatedSnpSet-class
, by class "HmmSnpCopyNumberSet", distance 3.
Class AnnotatedSnpCallSet-class
, by class "HmmSnpCopyNumberSet", distance 4.
Class AnnotatedSnpCopyNumberSet-class
, by class "HmmSnpCopyNumberSet", distance 4, with explicit coerce.
Class SnpCallSet-class
, by class "HmmSnpCopyNumberSet", distance 5.
Class class.eSet
, by class "HmmSnpCopyNumberSet", distance 6.
Class VersionedBiobase-class
, by class "HmmSnpCopyNumberSet", distance 7.
Class Versioned-class
, by class "HmmSnpCopyNumberSet", distance 8.
Class SnpCopyNumberSet-class
, by class "HmmSnpCopyNumberSet", distance 5, with explicit coerce.
Class class.eSet
, by class "HmmSnpCopyNumberSet", distance 6, with explicit coerce.
Class VersionedBiobase-class
, by class "HmmSnpCopyNumberSet", distance 7, with explicit coerce.
Class Versioned-class
, by class "HmmSnpCopyNumberSet", distance 8, with explicit coerce.
Class hSet-class
, by class "HmmSnpCallSet", distance 2.
Class AnnotatedSnpSet-class
, by class "HmmSnpCallSet", distance 3.
Class AnnotatedSnpCallSet-class
, by class "HmmSnpCallSet", distance 4.
Class AnnotatedSnpCopyNumberSet-class
, by class "HmmSnpCallSet", distance 4, with explicit coerce.
Class SnpCallSet-class
, by class "HmmSnpCallSet", distance 5.
Class class.eSet
, by class "HmmSnpCallSet", distance 6.
Class VersionedBiobase-class
, by class "HmmSnpCallSet", distance 7.
Class Versioned-class
, by class "HmmSnpCallSet", distance 8.
Class SnpCopyNumberSet-class
, by class "HmmSnpCallSet", distance 5, with explicit coerce.
Class class.eSet
, by class "HmmSnpCallSet", distance 6, with explicit coerce.
Class VersionedBiobase-class
, by class "HmmSnpCallSet", distance 7, with explicit coerce.
Class Versioned-class
, by class "HmmSnpCallSet", distance 8, with explicit coerce.
signature(x = "HmmSnpSet")
: ... signature(x = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(from = "AnnotatedSnpSet", to =
"HmmSnpSet")
: ... signature(object = "HmmSnpSet")
:
... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(.Object = "HmmSnpSet")
:
Resets the package attribute from ICE (DEPRECATED package name)
to VanillaICEsignature(.Object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet", value = "matrix")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... signature(object = "HmmSnpSet")
: ... Robert Scharpf
HmmSnpCopyNumberSet-class
,
HmmSnpCallSet-class
hSet-class
showClass("HmmSnpSet")