[khmer] k-mer size

[C. Titus Brown]

Hi Marsel,

this will depend on your application. What are you trying to do?

For most applications of khmer we use between 21 and 31.

best,
--titus

On Thu, Oct 27, 2016 at 06:22:50PM +0700, Marsel R. Kabilov wrote:
> Dear colleagues,
>
> I have question about size of k-mer (--ksize parameter) for  
> normalize-by-median.py.
> I don't find anything about choosing of k-mer size.
> Would you so kind to help me?
>
> Sincerely yours,
> Marsel
>
> ---------------------------------------------------------------------
> Marsel Kabilov, Ph.D.
> Head of SB RAS Genomics Core Facility
> Institute of Chemical Biology and Fundamental Medicine SB RAS
> Lavrentiev av. 8, Novosibirsk, 630090, Russia
> Tel.: +7 383 3635113
> Fax: +7 383 3635153
> sequest.niboch.nsc.ru
>
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-- 
C. Titus Brown, ctbrown at ucdavis.edu