prettyPrint {chimera} | R Documentation |
A function reorganizing a list of fSet in a dataframe structure. The dataframe is then saved in a tab delimited file
prettyPrint(list, filename, fusion.reads=c("all","spanning"))
list |
a list of fSet object |
filename |
the name of the file in which the dataframe is printed |
fusion.reads |
it allows to extract spanning reads associated to the SeedCount slot or all the detected reads associate to the RescuedCount |
Raffaele A Calogero
#tmp <- importFusionData("fusionmap", paste(find.package(package="chimera"),"/examples/mcf7.FMFusionReport", sep=""), org="hg19") #fusion.names <- fusionName(tmp) #tmp1 <- filterList(tmp, type="fusion.names", fusion.names[c(1,3,7)], parallel=FALSE) #prettyPrint(tmp1, "tmp1.df.txt", fusion.reads="spanning")