On Wed, Jul 13, 2011 at 4:36 PM, Ivan Gregoretti <ivang...@gmail.com> wrote: > Hi everybody, > > As I wait for my large BAM to be read in by scanBAM, I can't help but to > wonder: > > Has anybody tried combining scanBam with multicore to load the > chromosomes in parallel? > > That would require > > 1) to merge the chunks at the end and > > 2) the original BAM to be indexed. > > Does anybody have any experience to share?
Multicore will help if your task is cpu limited (and you can chunk it). However, your specific task is probably I/O limited, in which case it is not clear that it would help to have more cores; in fact it might be detrimental depending on your filesystem and hardware. Kasper _______________________________________________ Bioc-sig-sequencing mailing list Bioc-sig-sequencing@r-project.org https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
