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Events/GCC2014/TrainingDay/Includes

Describe Events/GCC2014/TrainingDay/Includes here.

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SCHEDULE

Time

Barber Room 302

Salon A Room 303

Salon B Room 303

Salon C Room 303

Multipurpose Room 324

8:00

Registration Opens and Catered Breakfast

9:00

Visualization of NGS data

Raisins & Rabbit Turds: NGS Quality Control with Galaxy

Galaxy Internals: Flow control within Galaxy

Galaxy installation and administration

Training with Galaxy: a Genome Assembly Example

11:30

Lunch
Sponsored by EMC Isilon
EMC Isilon

12:30

Galaxy on a Cluster - User and Project Management

Galaxy Automation: Using the API

Tool Development from bright idea to toolshed - Designing a Galaxy Tool

RNA-Seq Analysis with Galaxy and the Tuxedo Suite

3D Genome Analysis with Galaxy

3:00

Break

3:30

RNA-Seq Analysis with Galaxy and Alternative Tools

Tool Development from bright idea to toolshed - Data Managers

Visualization of NGS data

Scriptable Bioinformatics Cloud Infrastructures with Cloud BioLinux, CloudMan & Galaxy

Galaxy on a Cluster - User and Project Management

6:00

Break

6:15

Dinner (on your own) / Birds-of-a-Feather Flock 1

10:00

Finish


Biologist-centric

Developer-centric

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Prerequisites

LAPTOP

  • A wi-fi enabled laptop. 

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WEB BROWSER

  • A modern web browser.  Google Chrome, Firefox and Safari will work best. 

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LAPTOP WITH BROWSER

  • A wi-fi enabled laptop with a modern web browser.  Google Chrome, Firefox and Safari will work best. 

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VM_PLAYER

  • Virtual machine (VM) player software, VirtualBox is recommended and has been tested with the conference virtual machine images. 

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VM

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VM_BASIC

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VM_ADVANCED

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VM_USER_PROJECT

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NOVICE

  • Little or no knowledge of Galaxy. 

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INTRO

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QC

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TUXEDO

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SSH

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UNIX KNOWLEDGE

  • Knowledge and comfort with the Unix/Linux command line interface and a text editor. If you don't know what cd, mv, rm, mkdir, chmod, grep and so on can do then you will struggle in this workshop.

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PYTHON

  • A knowledge of Python programming.

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GALAXY ADMIN

  • Experience maintaining a production Galaxy server (recommended)

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AWS ACCOUNT

  • An account on Amazon Web Services. These can be setup for free, but it does require a credit card.

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AWS SUPPORT

 Amazon Web Services 
This workshop uses AWS-based compute infrastructure END_INCLUDE

VIRTUAL BOX

Virtual Machine Images
This workshop will require that you have the VirtualBox player installed on your laptop. END_INCLUDE

GVL SUPPORT

 Genomics Virtual Lab 
This workshop uses GVL-based compute infrastructure END_INCLUDE