PATRIC/RAST Workshop at Argonne National Laboratory, October 23-25, 2018

Published on 2018-08-15

The PATRIC/RAST teams will be offering a tutorial workshop October 23-25, 2018, at Argonne National Laboratory in the suburbs of Chicago, IL. The workshop will run for three days, with the third day optional and devoted solely to participants working on their own problems with help from the PATRIC/RAST team members.

The workshop will be limited to 40 people on a first-come, first-served basis. There is no fee for the workshop, but participants are responsible for their own travel expenses. If you wish to participate, we encourage you to respond quickly at <rast-workshop@mcs.anl.gov>.

NOTE: All workshop attendees must also separately fill out the “Argonne Visitor Request” form at: <https://apps.anl.gov/registration/visitors> as soon as possible — but especially non-U.S. Citizens, since they will take additional time to be cleared. Please enter Lisa Hundley, <lhundley@anl.gov>, for the “Sponsor’s e-mail address.”

LOCATION

Argonne National Laboratory

Building 402, Lower Level Gallery

Argonne, IL 60439

DRAFT AGENDA

Tuesday, October 23, 2018

 9:00 am   Register for PATRIC Account, Overview (www.patricbrc.org)

10:15 am   Comprehensive Genome Analysis

11:00 am   Break

11:10 am   Assemble a Genome in PATRIC and Data Upload

11:40 am   Annotate a Genome in PATRIC Using RASTtk

12:00 pm   Lunch

 1:00 pm   Similar Genome Finder Service

 1:30 pm   Running PATRIC’s Tree Building Service

 2:15 pm   Break

 2:30 pm   Proteome Comparison

 3:15 pm   Comparative Genomics: Protein Families and Pathways

 4:30 pm   Question and Answer Session and Hands-on Work

 5:00 pm   Day 1 Adjourn

Wednesday, October 24, 2018

 9:00 am   BLAST at PATRIC

 9:30 am   RNA-Seq Pipeline, Downloading Data into PATRIC and Differential Expression

10:00 am   Break

10:15 am   Expression Data Import Service

10:45 pm   Comparative Transcriptomics: Exploring Public and Private Expression Data in PATRIC

12:00 pm   Lunch

 1:00 pm   SNP and MNP Variation service

 2:00 pm   Metagenome Binning Service

 3:00 pm   Building a Metabolic Model

 4:00 pm   Question and Answer Session and Hands-on Work

 5:00 pm   Day 2 Adjourn

Thursday, October 25, 2018

 9:00 am   Introduction to PATRIC Command Line Interface (CLI)

11:00 am   Break

11:15 am   Work with Your Private Data

12:00 pm   Lunch

 1:00 pm   Work with Your Private Data

 3:00 pm   Question and Answer Session and Hands-on Work

 4:00 pm   Workshop Concludes