The MG-RAST metagenomics database and portal in 2015

Title Using the Metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes Source

An experience report: porting the MG-RAST rapid metagenomics analysis pipeline to the cloud

Existing applications in computational biology typically favor a local cluster based integrated computational platform. We present a lessons learned type report for scaling up an existing metagenomics application that outgrew the available local cluster hardware. In our example, removing a number of assumptions linked to tight integration allowed to expand beyond one administrative domain, incr...

EBI Metagenomics portal: Quick tour

Metagenomics is the study of the genomes present in communities of organisms found in environmental samples. Most microbial organisms are not culturable and therefore these communities cannot be studied using traditional laboratory techniques. Metagenomics, a sequencingbased, cultivation-independent approach, can help provide powerful insights into microbial community structure, the processes t...

Analyzing Metagenomic Data: Inferring Microbial Community Function with Mg-rast

Application of massively parallel throughput DNA sequencing technologies to the generation of metagenomic datasets from environmental samples is presently transforming the field of microbiology. Whereas traditional (Sanger-based) DNA sequencing technology imparted a high economic cost on data generation, the development of “next-generation” technologies now make the large-scale generation of se...

The Amordad database engine for metagenomics

MOTIVATION Several technical challenges in metagenomic data analysis, including assembling metagenomic sequence data or identifying operational taxonomic units, are both significant and well known. These forms of analysis are increasingly cited as conceptually flawed, given the extreme variation within traditionally defined species and rampant horizontal gene transfer. Furthermore, computationa...