how to pull out the low abundant organizm from metagenome

[plumb]

Any suggestions on pull out low abundant species from metagenomes? the data is illumina hiseq.

I heard some people are using k-mer based methods but I cannot find any paper on that.

[severin]

khmer by C titus Brown

Check out khmer for digital normalization prior to assembly.

http://lyorn.idyll.org/~t/khmer/index.html

Any suggestions on pull out low abundant species from metagenomes? the data is illumina hiseq.

I heard some people are using k-mer based methods but I cannot find any paper on that.

[crusoe]

FYI: the current address to our documentation is at http://khmer.readthedocs.org/