Meta4 is a simple, flexible database system with a web-interface that allows the rapid sharing of metagenomic datasets with collaborators.
Starting with assembled and annotated contigs, bioinformaticians can create a Meta4 instance in less than an hour on most standard Apache web-servers. The data can then be shared with collaborators over the web.
2. Amazon Image
There is an AMI available, based on Ubuntu, running Apache2 with a Meta4 database including example data. The current AMI is available in the EU-WEST region:
Information on how this was set up can be found here.
3. Example data
We have created an example Meta4 database and the results can be browsed at http://www.ark-genomics.org/tools/meta4. Briefly, we downloaded data from Hess et al., 2011 (SRA accession SRA023560) and assembled the reads using SOAPdenovo. Open-reading frames greater than 200bp in length were extracted as putative genes. Pfam-A domains were annotated using pfam_scan.pl.
As the experiment was designed to find novel biomass degrading genes, we en-courage users to enter “glyco_hydro” into the “Name” field and click “Submit”.
Feedback should be sent to email@example.com