"SaveResults"(run=Rolexa.env,results,outpath,prefix="rs_")
SaveResults(run,...)
"CombineReads"(run=Rolexa.env,path,pattern="s_[1-8]_0[01][0-9]*_seq*")
CombineReads(run,path,...)
"CombineFastQ"(run=Rolexa.env,path,pattern="s_[1-8]_0[01][0-9]*",sext="_seq*",pext="_prb*")
CombineFastQ(run,path,...)RolexaRun object defining the run parametersFilterResults
or SeqScoreCombineReads returns a ShortRead object, CombineFastQ returns a ShortReadQ object,
CombineReads reads "\_seq" files and splits the columns to
create a ShortRead object,
CombineFastQ reads "\_seq" and "\_prb" files and combines them
into a ShortReadQ object,
SaveResults creates a ShortReadQ
objects from the output of FilterResults and writes it to a
file using writeFastq.
SeqScore and FilterResults to
produce results for SaveResults