counts: Getter/setter for count data

In FRASER: Find RAre Splicing Events in RNA-Seq Data

Description

Getter/setter for count data

setter for count data

Usage

K(fds, type = currentType(fds))

N(fds, type = currentType(fds))

## S4 method for signature 'FraserDataSet'
counts(object, type = NULL, side = c("ofInterest", "otherSide"))

## S4 replacement method for signature 'FraserDataSet,ANY'
counts(object, type = NULL, side = c("ofInterest", "otherSide"), ...) <- value

Arguments

fds, object	FraserDataSet
type	The psi type.
side	"ofInterest" for junction counts, "other" for sum of counts of all other junctions at the same donor site (psi5) or acceptor site (psi3), respectively.
...	Further parameters that are passed to assays(object,...)
value	An integer matrix containing the counts.

Value

FraserDataSet

Examples

 fds <- createTestFraserDataSet()
 
 counts(fds, type="psi5", side="ofInterest")
 counts(fds, type="psi5", side="other")
 head(K(fds, type="psi3"))
 head(N(fds, type="theta"))
 

FRASER documentation built on Feb. 3, 2021, 2:01 a.m.