Question: How To Determine How Many Strains Of Ecoli In Metagenome
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gravatar for zeleniy.spb
5.5 years ago by
zeleniy.spb30
zeleniy.spb30 wrote:

I have a human gut whole genome metagenomics reads. And i must answer the question - is there only one or several ecoli strains in it. How can i do it?

metagenomics • 1.6k views
ADD COMMENTlink modified 5.5 years ago by Manu Prestat3.9k • written 5.5 years ago by zeleniy.spb30
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gravatar for Leszek
5.5 years ago by
Leszek4.0k
IIMCB, Poland
Leszek4.0k wrote:

I have seen recently paper/program that can help you.

ADD COMMENTlink written 5.5 years ago by Leszek4.0k
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gravatar for Manu Prestat
5.5 years ago by
Manu Prestat3.9k
Marseille, France
Manu Prestat3.9k wrote:

You can also find some inspiration in that Banfield's Lab paper:

Morowitz, M. J., Denef, V. J., Costello, E. K., Thomas, B. C., Poroyko, V., Relman, D. A., & Banfield, J. F. (2011). Strain-resolved community genomic analysis of gut microbial colonization in a premature infant. Proceedings of the National Academy of Sciences of the United States of America, 108(3), 1128–1133. doi:10.1073/pnas.1010992108

ADD COMMENTlink modified 5.5 years ago • written 5.5 years ago by Manu Prestat3.9k
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