MG-RAST Newsletter, June 2014

MG-RAST Newsletter, June 2014

Recent highlight
MG-RAST has crossed the 400 billion sequences annotated threshold, that is
400×10^9 sequences. The estimated BLAST cost for this would have exceeded
100 million US dollars on Amazon’s EC2 cloud*.

* Following the calculations in Angiuoli et al, BMC Bioinformatics 2011
(DOI 10.1186/1471-2105-12-356) and Wilkening et al, IEEE Cluster 2009
(DOI: 10.1109/CLUSTR.2009.5289187).


User manual [NEW FEATURE]
We are transitioning our user help documentation from the blog system currently used
to a user manual in PDF format, mirrored by a “traditional” web site.
The PDF is ready today at:
ftp://ftp.metagenomics.anl.gov/data/manual/mg-rast-manual.pdf
We will keep updating and revising the user manual without changing this URL.
Dangers of account sharing [WARNING]
We are experiencing issues caused by multiple individuals sharing a single account.
Please note we cannot tell who the legitimate owner of an account is in cases like
this. If you share your password with another person, they can change it, thus taking
away access to your account and your data. The built-in sharing feature is a better way
to share data with someone. The metagenome overview and project pages have
‘share’ buttons, just type in a valid email address for the person you want to share with
(it does not matter if they have an MG-RAST account or not) to grant access to your
data. The user manual (linked above) has more details in section 4.11.
API [NEW FEATURE]
As part of the next version of MG-RAST we have created a REST application programmers’
interface. The API provides access to all public and private data in MG-RAST in many
programming languages, the access to private data requires authentication.
Check out details at: http://api.metagenomics.anl.gov/api.html

New version of MG-RAST [UPDATE]

As some of you may have heard, we are working hard on a new version of MG-RAST to
be released later this year. It will include a number of new features, including better
support for metatranscriptomics, a browser independent user interface, and updated
annotations — we will update old jobs AND archive existing results. With this new version
we will also start automatic rolling updates of annotations for all jobs.
UI Changes/Bug fixes [UPDATE]
– fixed database issues caused by sequence file names containing unacceptable characters by modifying the file name filtering step,
– removed size restrictions for the clustering stage, allowing more efficient handling of extremely large datasets,
– several minor bug fixes improving the stability of the existing pipeline
– resolved several minor issues to improve usability of the UI

Regards,
Folker Meyer
and the MG-RAST team

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