Metagenomics
MG-RAST
MG-RAST
(the Metagenomics RAST) server is an automated analysis platform for
metagenomes providing quantitative insights into microbial populations
based on sequence data. The server primarily provides upload, quality
control, automated annotation and analysis for prokaryotic metagenomic
shotgun samples.
(Reference: Wilke A, et al. 2016. Nucleic Acids Res.
44(D1):D590-4).
AmphoraNet2
AmphoraNet2
- uses 31 bacterial and 104 archaeal protein coding marker genes for
metagenomic and genomic phylotyping. Most of these are single copy genes,
therefore AmphoraNet is suitable for estimating the taxonomic composition
of bacterial and archaeal communities from metagenomic shotgun sequencing
data.
(Reference: Kerepesi C, et al. 2014. Gene. 533:538-40).
EBI Metagenomics
EBI Metagenomics (EMBL-EBI) - is an automated pipeline for the analysis and archiving of metagenomic data that aims to provide insights into the phylogenetic diversity as well as the functional and metabolic potential of a sample. You can freely browse all the public data in the repository. The service identifies rRNA sequences, using rRNASelector, and performs taxonomic analysis upon 16S rRNAs using Qiime. The remaining reads are submitted for functional analysis of predicted protein coding sequences using the InterPro sequence analysis resource. InterPro uses diagnostic models to classify sequences into families and to predict the presence of functionally important domains and sites. By utilising this resource, the service offers a powerful and sophisticated alternative to BLAST-based functional metagenomic analyses. Data submitted to the EBI Metagenomics service is automatically archived in the European Nucleotide Archive (ENA). Accession numbers are supplied for sequence data.
Updated: December, 2025