On Monday 23 May 2011 22:50:11 Evan wrote: >> Question from my side: would an option to keep reads at contig ends >> unmerged be something of interest to you? > Bastien, I'll go ahead and try the -CO:msr=no option but at times I could > see the compromised option you suggest useful. Have a look at the new 3.4rc1 ... it will do exactly that (controlable via -CO:msrkceu). Best, Bastien