newfSet {chimera}R Documentation

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

Author(s)

Raffaele A Calogero

Examples

tmp <- newfSet()
tmp
[Package chimera version 1.24.0 Index]