On Tue, Mar 1, 2011 at 7:54 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote: > > On Sunday 27 February 2011 19:07:24 Peter wrote: >> [...] >> The details are not fresh to mind, but I think there is some headers >> that can be used in SAM/BAM to give library information like that >> (probably at the read group level). However, for each read pair >> there is a specific field for the insert/template size (one integer), >> which is what I was looking at for now. > > Do not put too much work into that ... I just decided today to write a SAM > exporter. You'll have to thank James Bonfield for that decision ... his newest > version of gap5 has a CAF importer and a SAM exporter, which enables me to > have a complete loop to test my code. > > Though James and I will have to tackle a few things still (tags come to mind). > > B. That's great news - feel free to borrow any code ideas, or ask me for any clarification of how I thought MIRA to SAM should work. Peter -- You have received this mail because you are subscribed to the mira_talk mailing list. For information on how to subscribe or unsubscribe, please visit http://www.chevreux.org/mira_mailinglists.html