AnnotateSJ.10x {MARVEL} | R Documentation |
Annotate splice junctions
Description
Annotates the splice junctions by assigning the gene name to the start and end of the splice junction. Annotations are retrieved from GTF.
Usage
AnnotateSJ.10x(MarvelObject)
Arguments
MarvelObject |
Marvel object. S3 object generated from |
Value
An object of class S3 containing the updated slot MarvelObject$sj.metadata
.
Examples
# Load un-processed MARVEL object
marvel.demo.10x.raw <- readRDS(system.file("extdata/data",
"marvel.demo.10x.raw.rds",
package="MARVEL")
)
# Annotate gene metadata
marvel.demo.10x <- AnnotateGenes.10x(MarvelObject=marvel.demo.10x.raw)
# Annotate junction metadata
marvel.demo.10x <- AnnotateSJ.10x(MarvelObject=marvel.demo.10x)
[Package MARVEL version 1.4.0 Index]