[khmer] Filter-abund and filter-below-abund

[C. Titus Brown]

Hi Raf,

filter-below-abund does the exact opposite - it trims the sequences
at k-mers *above* a certain abundance.  Done after diginorm, it has the
effect of truncating reads at the start of repetitive regions.

best,
-titus

On Wed, Oct 28, 2015 at 12:13:57PM +0100, Raf Winand wrote:
> Hi
> 
> I'm currently exploring khmer but I have question about two scripts, i.e.
> filter-abund.py and filter-below-abund.py. For filter-abund.py I found that
> it trims the sequences at a certain k-mer abundance but I can't seem to
> find a description of what filter-below-abund.py actually does. Could you
> tell me what the difference is between these scripts?
> 
> Best regards
> Raf
> 
> 
> -- 
> Raf Winand
> PhD student
> Faculty of Engineering - ESAT/STADIUS
> Bioinformatics Group
> Kasteelpark Arenberg 10 bus 2446
> 3001 Heverlee
> BELGIUM
> Tel: +32 16 32 86 43

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-- 
C. Titus Brown, ctbrown at ucdavis.edu