chimera (version 1.8.5)

newfSet: A constructor for fSet class objects

Description

A function to create a new fSet object

Usage

newfSet(fusionInfo = list(fusionTool = NA, UniqueCuttingPositionCount = 0, SeedCount = 0,  RescuedCount = 0,  SplicePattern = NA,  FusionGene = NA, frameShift = NA), 
	           fusionLoc = GRangesList(), fusionRNA = DNAStringSet(), fusionGA = GAlignments())

Arguments

fusionInfo

A list of the fusion characteristics see fSet class slot fusionInfo

fusionLoc

A GRangesList encompassing the fusion break points

fusionRNA

A DNAStringSet encompassing the fusion transcript

fusionGA

A GAlignments encompassing the location of reads mapping on the fusion transcript

Value

An object of fSet class

Examples

tmp <- newfSet()
tmp