View Single Post
Old 10-09-2011, 01:23 PM   #4
PratikC
Member
 
Location: India

Join Date: Sep 2011
Posts: 16
Default

Sorry friends for late reply. Thnx aaronh and colindaven. Yes my seq read is of 18GB and only 3 genes are there, but keep in mind its pooled sequencing so we got around 25 samples. Now coming to the main question, what I doubt is can pileup -vdf take so much time when rest of the steps are getting done withing few minutes to few hours. Does pileup take most of the ngs data processing time?

Now as you suggested, I got newer samtool and set up in my workstation. Will keep you posted when done with that one. Maybe mpileup will be more efficient to do the thing...
PratikC is offline   Reply With Quote