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Info: NOTICE: PATRIC/RAST Tutorial Workshop, 2019-Apr-16--18

The PATRIC/RAST teams will be offering a tutorial on 2019-Apr 16--18, at Argonne National Laboratory in the suburbs of Chicago, IL. The workshop will run for three days, with the third day optional.

The workshop will be limited to 40 people on a first-come, first-served basis.

Included in the workshop will be genome assembly and annotation, location of nearest reference genomes and construction of trees, comparative analysis of genome and proteome function and variation, RNA-Seq and Tn-Seq analysis, expression and transcriptomic data importation and analysis, SNP and MNP analysis, metagenomic binning and analysis, and metabolic model construction. The optional third day will be devoted to participants who wish to learn how to use the PATRIC command-line interface, or who wish to work on their own problems with help from the PATRIC/RAST team members.

For the full text of the Workshop Announcement and the Draft Agenda, please visit:
https://docs.patricbrc.org/news/2019/20190206-patric-workshop-at-argonne-national-lab.html

While there is no fee for the workshop, participants are responsible for their own travel and lodging expenses. If you wish to participate, we encourage you to respond quickly to:
<rast-workshop@mcs.anl.gov> .

All workshop attendees must also separately go to <https://apps.anl.gov/registration/visitors> and click on the "Accept Terms and Conditions" button. Please enter Lisa Hundley, <lhundley@anl.gov> as your "Sponsor's e-mail address", click "Verify Sponsor Email", and then fill out the resulting "Argonne Visitor Request" form as soon as possible — especially non-U.S. Citizens, since they will need additional time to be cleared by Argonne Security. Please note that your workshop registration will not be considered to be "confirmed" until you have filled out the Visitor's request form and your request has been cleared by Argonne Security, and that you will not be allowed onto the Lab Campus unless your Visitor's form has been approved by Security.


NOTICE: RASTtk is now the Default RAST Pipeline

RASTtk is now the default RAST pipeline. "Classic RAST" will still be available, but if you want to use it, you will need to explicitly select it at Stage Three of the upload process.


To monitor RAST's load and view other news and statistics for RAST and the SEED, please visit "The Daily SEED."

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RAST Job Load, last 24 hours

What is RAST?

RAST (Rapid Annotation using Subsystem Technology) is a fully-automated service for annotating complete or nearly complete bacterial and archaeal genomes. It provides high quality genome annotations for these genomes across the whole phylogenetic tree.

We have a number of presentations and tutorials available:

As the number of more or less complete bacterial and archaeal genome sequences is constantly rising, the need for high quality automated initial annotations is rising with it. In response to numerous requests for a SEED-quality automated annotation service, we provide RAST as a free service to the community. It leverages the data and procedures established within the SEED framework to provide automated high quality gene calling and functional annotation. RAST supports both the automated annotation of high quality genome sequences AND the analysis of draft genomes. The service normally makes the annotated genome available within 12-24 hours of submission.

Please note that while the SEED environment and SEED data structures (most prominently FIGfams) are used to compute the automatic annotations, the data is NOT added into the SEED automatically. Users can however request inclusion of a their genome in the SEED. Once annotation is completed, genomes can be downloaded in a variety of formats or viewed online. The genome annotation provided does include a mapping of genes to subsystems and a metabolic reconstruction.

To be able to contact you once the computation is finished and in case user intervention is required, we request that users register with email address.

If you use the results of this annotation in your work, please cite:

This project has been funded in whole or in part with Federal funds from the National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services, under Contract No. HHSN272200900040C and the National Science Foundation under Grant No. 0850546.