[mira_talk] Question about kmer size settings in an EST assembly

  • From: Robert Bruccoleri <bruc@xxxxxxxxxxxxxxxxxxxxx>
  • To: mira_talk@xxxxxxxxxxxxx
  • Date: Sun, 24 Apr 2016 17:10:42 -0400

I am attempting a very large scale EST assembly, and I notice that the overlap detection phase seems to go quicker when the kmer size is larger. What are the consequences of having the first pass start at a larger kmer size (say 50) instead of the usual 17?

Thanks! --Bob

begin:vcard
fn:Robert Bruccoleri, Ph.D.
n:Bruccoleri;Robert
org:Audacious Energy, LLC and Congenomics, LLC
adr:;;;;;;USA
email;internet:bruc@xxxxxxx
title:President
version:2.1
end:vcard

Other related posts:

  1. Home
  2. mira_talk
  3. Archive
  4. 04-2016