AffyExpressionPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
AffyGenePDInfo-class |
Class AffyGenePDInfo |
affyPlatforms |
Available Affymetrix platforms for SNP arrays |
AffySNPCNVPDInfo-class |
Class "DBPDInfo" |
AffySNPPDInfo-class |
Class "DBPDInfo" |
AffyTilingPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
calculateCopyNumber |
Calculates copy number as the average of SNP-level summaries from the A and B alleles |
calculateCopyNumber,SnpCallSetPlus-method |
Class "SnpCallSetPlus" |
calls |
Accessors for SnpCallSet |
calls,oligoSnpSet-method |
Methods for oligoSnpSet class |
calls,SnpCallSet-method |
Accessors for SnpCallSet |
calls,SnpLevelSet-method |
Class "SnpLevelSet" |
calls<-,oligoSnpSet,matrix-method |
Methods for oligoSnpSet class |
calls<-,SnpCallSet,matrix-method |
Accessors for SnpCallSet |
calls<-,SnpLevelSet,matrix-method |
Class "SnpLevelSet" |
callsConfidence |
Accessors for SnpCallSet |
callsConfidence,oligoSnpSet-method |
Methods for oligoSnpSet class |
callsConfidence,SnpCallSet-method |
Accessors for SnpCallSet |
callsConfidence,SnpLevelSet-method |
Class "SnpLevelSet" |
callsConfidence<-,oligoSnpSet,matrix-method |
Methods for oligoSnpSet class |
callsConfidence<-,SnpCallSet,matrix-method |
Accessors for SnpCallSet |
callsConfidence<-,SnpLevelSet,matrix-method |
Class "SnpLevelSet" |
chromosome |
Accessor for chromosome information |
chromosome,SnpLevelSet-method |
Class "SnpLevelSet" |
chromosome<-,AnnotatedDataFrame,character-method |
Accessor for chromosome information |
chromosome<-,SnpLevelSet,character-method |
Class "SnpLevelSet" |
cnConfidence |
Accessors for SnpCopyNumberSet objects |
cnConfidence,oligoSnpSet-method |
Methods for oligoSnpSet class |
cnConfidence,SnpCopyNumberSet-method |
Accessors for SnpCopyNumberSet objects |
cnConfidence,SnpLevelSet-method |
Class "SnpLevelSet" |
cnConfidence<-,oligoSnpSet,matrix-method |
Methods for oligoSnpSet class |
cnConfidence<-,SnpCopyNumberSet,matrix-method |
Accessors for SnpCopyNumberSet objects |
cnConfidence<-,SnpLevelSet,matrix-method |
Class "SnpLevelSet" |
coerce,SnpCallSetPlus,oligoSnpSet-method |
Class "SnpCallSetPlus" |
combine,SnpLevelSet,SnpLevelSet-method |
Class "SnpLevelSet" |
copyNumber |
Accessors for SnpCopyNumberSet objects |
copyNumber,oligoSnpSet-method |
Methods for oligoSnpSet class |
copyNumber,SnpCopyNumberSet-method |
Accessors for SnpCopyNumberSet objects |
copyNumber,SnpLevelSet-method |
Class "SnpLevelSet" |
copyNumber<-,oligoSnpSet,matrix-method |
Methods for oligoSnpSet class |
copyNumber<-,SnpCopyNumberSet,matrix-method |
Accessors for SnpCopyNumberSet objects |
copyNumber<-,SnpLevelSet,matrix-method |
Class "SnpLevelSet" |
db |
Get the connection to the SQLite Database |
db,DBPDInfo-method |
Get the connection to the SQLite Database |
db,SnpCallSet-method |
Get the connection to the SQLite Database |
db,SnpCallSetPlus-method |
Class "SnpCallSetPlus" |
db,SnpLevelSet-method |
Class "SnpLevelSet" |
db-methods |
Get the connection to the SQLite Database |
DBPDInfo-class |
Class "DBPDInfo" |
ExonFeatureSet-class |
"FeatureSet" Extensions |
ExpressionFeatureSet-class |
"FeatureSet" Extensions |
ExpressionPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
FeatureSet-class |
Classes for Feature level data |
GeneFeatureSet-class |
Class GeneFeatureSet |
initialize,oligoSnpSet-method |
Methods for oligoSnpSet class |
initialize,SnpCallSet-method |
"SnpSet" Extensions |
initialize,SnpCallSetPlus-method |
Class "SnpCallSetPlus" |
initialize,SnpCnvCallSetPlus-method |
Class "SnpCallSetPlus" |
initialize,SnpCopyNumberSet-method |
"SnpSet" Extensions |
initialize,SnpQSet-method |
Class "SnpQSet" |
initialize,TilingQSet-method |
Class "TilingQSet" |
NgsExpressionPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
NgsTilingPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
oligoSnpSet-class |
Methods for oligoSnpSet class |
PDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
platformDesign-class |
Class "platformDesign" |
position |
Accessor to position information |
position,SnpLevelSet-method |
Class "SnpLevelSet" |
QuantificationSet-class |
Class "QuantificationSet" |
SnpCallSet-class |
"SnpSet" Extensions |
SnpCallSet-methods |
"SnpSet" Extensions |
SnpCallSetPlus-class |
Class "SnpCallSetPlus" |
SnpCnvCallSetPlus-class |
Class "SnpCallSetPlus" |
SnpCnvFeatureSet-class |
Class "SnpCnvFeatureSet" |
SNPCNVPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
SnpCnvQSet-class |
Class "SnpCnvQSet" |
SnpCopyNumberSet-class |
"SnpSet" Extensions |
SnpCopyNumberSet-methods |
"SnpSet" Extensions |
SnpFeatureSet-class |
"FeatureSet" Extensions |
SnpLevelSet-class |
Class "SnpLevelSet" |
SNPPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
SnpQSet-class |
Class "SnpQSet" |
TilingFeatureSet-class |
"FeatureSet" Extensions |
TilingPDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
TilingQSet-class |
Class "TilingQSet" |