Difference between revisions of "Metagenomics"
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=== Tools === | === Tools === | ||
| − | ====mOTUs2 ==== | + | ====mOTUs2 <cite>motus2</cite> ==== |
* Phylogenetic profiling based on universal markers | * Phylogenetic profiling based on universal markers | ||
* Allow to classify genomes for which reference genomes are not available | * Allow to classify genomes for which reference genomes are not available | ||
| − | * relative abundance | + | * relative abundance |
| − | |||
| − | |||
<br /> | <br /> | ||
| − | |||
==== Bracken ==== | ==== Bracken ==== | ||
Revision as of 10:06, 5 June 2019
Comparison of species composition fro, shotgun metagnomic data
- Read classification (kraken-like): needs normalization by genome length to derive relative abundance
Tools
mOTUs2 [1]
- Phylogenetic profiling based on universal markers
- Allow to classify genomes for which reference genomes are not available
- relative abundance
Bracken
links
Bibliography
- Milanese A, Mende DR, Paoli L, Salazar G, Ruscheweyh HJ, Cuenca M, Hingamp P, Alves R, Costea PI, Coelho LP, Schmidt TSB, Almeida A, Mitchell AL, Finn RD, Huerta-Cepas J, Bork P, Zeller G, and Sunagawa S. Microbial abundance, activity and population genomic profiling with mOTUs2. Nat Commun. 2019 Mar 4;10(1):1014. DOI:10.1038/s41467-019-08844-4 |