CTSSnormalizedTpm {CAGEr} | R Documentation |
Extracts the normalized CAGE signal for all detected TSSs
in all CAGE datasets from CAGEset
and
CAGEexp
objects.
CTSSnormalizedTpm(object) ## S4 method for signature 'CAGEset' CTSSnormalizedTpm(object) ## S4 method for signature 'CAGEexp' CTSSnormalizedTpm(object) CTSSnormalizedTpmDf(object) ## S4 method for signature 'CAGEset' CTSSnormalizedTpmDf(object) ## S4 method for signature 'CAGEexp' CTSSnormalizedTpmDf(object) CTSSnormalizedTpmDF(object) ## S4 method for signature 'CAGEset' CTSSnormalizedTpmDF(object) ## S4 method for signature 'CAGEexp' CTSSnormalizedTpmDF(object) CTSSnormalizedTpmGR(object, samples) ## S4 method for signature 'CAGEr' CTSSnormalizedTpmGR(object, samples)
object |
A CAGEset or CAGEexp object. |
samples |
The name of sample(s) as reported by |
CTSSnormalizedTpm
returns a data.frame
containing coordinates
and normalized CAGE signal supporting each TSS (rows) in every CAGE dataset (columns).
CTSSnormalizedTpmDf
returns a data.frame
of normalised expression values.
CTSSnormalizedTpmDF
returns a DataFrame
of normalised expression values.
Vanja Haberle
Other CAGEr accessor methods: CTSSclusteringMethod
,
CTSScoordinates
,
CTSScumulativesTagClusters
,
CTSStagCountTable
,
CTSStagCount
, GeneExpDESeq2
,
GeneExpSE
,
consensusClustersGR
,
genomeName
, inputFilesType
,
inputFiles
, librarySizes
,
sampleLabels
,
seqNameTotalsSE
, tagClusters
head(CTSSnormalizedTpm(exampleCAGEset)) normalizeTagCount(exampleCAGEexp) head(CTSSnormalizedTpm(exampleCAGEexp)) head(CTSSnormalizedTpmDf(exampleCAGEset)) normalizeTagCount(exampleCAGEexp) head(CTSSnormalizedTpmDf(exampleCAGEexp))