assays {SGSeq} | R Documentation |
Functions counts
and FPKM
are used to extract counts and
FPKM values from SGFeatureCounts
and SGVariantCounts
objects. Function variantFreq
is used to access relative usage
estimates from SGVariantCounts
objects.
FPKM(object, ...) FPKM(object, ...) <- value variantFreq(object) variantFreq(object) <- value ## S4 method for signature 'SGFeatureCounts' counts(object) ## S4 replacement method for signature 'SGFeatureCounts' counts(object) <- value ## S4 method for signature 'SGFeatureCounts' FPKM(object) ## S4 replacement method for signature 'SGFeatureCounts' FPKM(object) <- value ## S4 method for signature 'SGVariantCounts' counts(object, ...) ## S4 replacement method for signature 'SGVariantCounts' counts(object, ...) <- value ## S4 method for signature 'SGVariantCounts' FPKM(object, ...) ## S4 method for signature 'SGVariantCounts' variantFreq(object) ## S4 replacement method for signature 'SGVariantCounts' variantFreq(object) <- value
object |
Object containing assay data |
... |
Arguments passed to method for |
value |
Replacement value |
Assay data for accessor functions or updated object for replacement functions.
Leonard Goldstein
x <- counts(sgfc_pred) y <- FPKM(sgfc_pred) u <- counts(sgvc_pred, option = "variant5p") v <- FPKM(sgvc_pred, option = "variant5p")