#266 Is OVL or MER overlaper more suitable for Illumina reads

overlapper
closed-accepted
Brian Walenz
None
5
2015-02-02
2014-02-10
mapleforest
No

Hi,

I have a question.

I have a project that contains only illumina Hiseq2000 reads (2x101bp).

Since I have only illumina reads and the MER overlaper runs much slower than OVL overlaper, should I use OVL instead of MER for my project?
Is any difference when they are applied to illumina reads?

Best regards

Huang.

Discussion

  • Brian Walenz
    Brian Walenz
    2014-02-10

    Hi-

    Yes, use OVL! The MER overlapper cannot scale much past a bacteria. The MER overlapper seems to be slightly more sensitive, but that only is important for low coverage of 5-10x.

     
    • mapleforest
      mapleforest
      2014-02-11

      Thanks for you prompt answers! best regards.

      [Bri removed quoted email]

       
      Last edit: Brian Walenz 2015-02-02
      Attachments
  • Brian Walenz
    Brian Walenz
    2015-02-02

    • status: open --> closed-accepted
    • assigned_to: Brian Walenz
     
  • Brian Walenz
    Brian Walenz
    2015-02-02

    Closing case.