Provides structure and functions for the analysis of OTU data


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Documentation for package ‘OTUbase’ version 1.16.0

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OTUbase-package The OTUbase package: A tool for organizing and manipulating Operational Taxonomic Unit data
abundance abundance
abundance-method abundance
aData assignmentData
aData-method assignmentData
aData<- assignmentData
aData<--method assignmentData
assignmentData assignmentData
assignmentData-method assignmentData
assignmentData<- assignmentData
assignmentData<--method assignmentData
assignmentLabels assignmentData
assignmentLabels-method assignmentData
assignmentLabels<- assignmentData
assignmentLabels<--method assignmentData
assignmentNames assignmentData
assignmentNames-method assignmentData
clusterSamples clusterSamples
clusterSamples-generic clusterSamples
clusterSamples-method clusterSamples
getOTUs Other functions
getSamples Other functions
notus Other Generics
notus-method Other Generics
nsamples Other Generics
nsamples-method Other Generics
OTUbase The OTUbase package: A tool for organizing and manipulating Operational Taxonomic Unit data
otuID Accessor functions for OTUset and TAXset objects
otuID-method Accessor functions for OTUset and TAXset objects
otuseqplot Other functions
OTUset "OTUset" class for OTU data
OTUsetB "OTUset" class for OTU data
OTUsetB-class "OTUset" class for OTU data
OTUsetF "OTUset" class for OTU data
OTUsetF-class "OTUset" class for OTU data
OTUsetQ "OTUset" class for OTU data
OTUsetQ-class "OTUset" class for OTU data
otusize Other functions
otuspersample Other functions
o_diversity Other functions
o_estimateR Other functions
readOTUset readOTUset
readTAXset readTAXset
rseqplot Other functions
sampleData sampleData
sampleData-method sampleData
sampleData<- sampleData
sampleData<--method sampleData
sampleID Accessor functions for OTUset and TAXset objects
sampleID-method Accessor functions for OTUset and TAXset objects
sampleLabels sampleData
sampleLabels-method sampleData
sampleLabels<- sampleData
sampleLabels<--method sampleData
sData sampleData
sData-method sampleData
sData<- sampleData
sData<--method sampleData
seqnames Other Generics
seqnames-method Other Generics
seqspersample Other functions
sharedotus Other functions
subOTUset subOTUset
subTAXset subTAXset
tax Accessor functions for OTUset and TAXset objects
tax-method Accessor functions for OTUset and TAXset objects
tax<- Accessor functions for OTUset and TAXset objects
tax<--method Accessor functions for OTUset and TAXset objects
TAXset "TAXset" class for TAX data
TAXsetB "TAXset" class for TAX data
TAXsetB-class "TAXset" class for TAX data
TAXsetF "TAXset" class for TAX data
TAXsetF-class "TAXset" class for TAX data
TAXsetQ "TAXset" class for TAX data
TAXsetQ-class "TAXset" class for TAX data