Template Page - TSW
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Section Navigation
Pre-Workshop Homework
Laptop Compatibility
If you are bringing your own laptop:
Most laptops (<5 years old) updated with the latest web browser (we recommend FireFox:http://www.mozilla.org/en-US/firefox/fx/ ) will have no problem.
Here are some things to check:
- If possible, make sure you have have administrative privileges on your computer (should it become necessary to install or update software during the workshop).
- Ensure that your computer is running a current browser (Mozilla Firefox 13/ Internet Explorer 8 (IE 9 preferred) / Safari 4 or later).
- If you are a Windows user, ensure that your computer is running Java 6 Update 19 or later by going to http://java.com and click ‘Do I Have Java?’ Then click ‘Verify Java version’ and install.
- If you are a Mac user, check that your computer has the latest Java installed (probably Java 6) and that it also is enabled. (Check it out at http://java.com or contact williams@cshl.edu for additional advice).
- To test your Java installation, go to http://gfx.dnalc.org/files/apollo/test/ and follow the instructions at that site. The test is successful if an image opens up on your computer that looks like this screenshot: Java Screenshot
Make sure you have a valid iPlant account
- If you a current iPlant account, log into the iPlant Discovery Environment here.
- If you do not have an iPlant account, please get one at: http://user.iplantcollaborative.org/register.
Workshop Agenda and Resources
Workshop DAY 1
Time |
Presentation |
Slides |
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08:30 AM |
Arrive/Sign-in |
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09:00 AM - 09:30 AM |
Welcome - Presenter/Participant Introductions |
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09:30 AM - 09:50 AM |
An Overview of the iPlant Collaborative |
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09:50 AM - 10:15 AM |
Overview of the iPlant Discovery Environment (DE) |
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10:15 AM - 10:30 AM |
Break |
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10:30 AM - 11:15 AM |
iPlant Data Store - Managing "Big Data" |
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11:15 AM - 12:00 PM |
Building and Using Workflows Within the DE; Phylogenetics |
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12:00 PM - 01:00 PM |
Lunch |
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01:00 PM - 02:00 PM |
Atmosphere - Custom Cloud Computing |
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02:00 PM - 02:30 PM |
Using the DE to Examine Differential Expression Within an RNA-Seq Dataset |
/wiki/spaces/eot/pages/241585220, C.Trapnell RNA-seq protocol paper, Nature Prtcls. |
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02:30 PM - 02:45 PM |
Break/ RNA-Seq continued |
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02:45 PM - 03:15 PM |
Extending the DE for Your Research: Tool Integration and Customization |
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04:00 PM - 04:30 PM |
Collaborating with iPlant: Future Projects and Workshop Summary |
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Tuesday December 11th
Time |
Presentation |
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Links |
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09:30 AM - 10:00 AM |
Powered by iPlant - Consuming iPlant Services in Your Portals |
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10:00 AM - 10:30 AM |
Tool intergration |
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10:30 AM- 12:00 PM |
Advanced RNA-Seq (break included) |
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01:00 PM - 01:30 PM |
More on transferring data with icommands (BYO data) |
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01:30 PM - 02:00 PM |
Using the iPlant Data Store as a Reliable Repository for Your Lab |
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02:00 PM - 03:00 PM |
Starting data transfers/ open topics |
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Attendee List
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Post Workshop Survey
Please complete this survey at the conclusion of the workshop: