compareToKnownJunctions: Compare backsplice junction identified by STAR to junction...

In KasperThystrup/circulaR: Characterization of circRNAs from Total RNA-seq data

Description

The function takes a circSample or circExperiment object and compares backsplice read data for circSample(s) to a database of known junction sites (generated by constructSJDB,ANY-method).

Usage

compareToKnownJunctions(object, known.junctions, cores = 1L, ...)

Arguments

object	circSample or circExperiment object
known.junctions	A vector of (valid) chromosome names that is used to restrict the chimeric read data
cores	Only supported on unix! Number of cores used for parallel processing for circExperiment objets.

Value

List of linear splice junction count summaries (SJ.tab.out) for all samples stored in the circExperiment-object.

Examples

#kj <- constructSJDB(annotationDB = db)
#readBSJdata(object, known.junctions = kj, cores = 4)

KasperThystrup/circulaR documentation built on March 14, 2021, 12:44 p.m.