[protocols] Fwd: Kalamazoo Metagenome Assembly Question

[Adina Chuang Howe]

Hi folks,


https://khmer-protocols.readthedocs.org/en/v0.8/metagenomics/1-quality.html

Is there a reason s2_se leftover from trimmomatic are excluded from this?
 These files are generally smaller in my datasets (though I'm missing the
biological reason for this).  As far as I know, these are the second pair's
adapter-trimmed and possibly now unpaired.  I think they should be treated
as s1_se?  i.e., quality trimmed and then concatenated with all single ends.

Cheers,
-adina
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