Difference between revisions of "2013 GMOD Summer School"

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[[File:2013-summer-school.png|right|400px|2013 GMOD Summer School]]
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[[File:2013-summer-school.png|right|300px|2013 GMOD Summer School]]
Dates: Friday July 19th - Tuesday July 23rd
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Dates: Friday July 19th - Tuesday July 23rd 2013
  
 
Venue: [http://nescent.org NESCent, North Carolina]
 
Venue: [http://nescent.org NESCent, North Carolina]
  
The GMOD Summer School is a five day course that covers the use of several widely used GMOD components in the context of a organism or clade database. The course is taught by members of the projects' development teams.  Applications are competitive, since we generally receive many more applications that we have slots.
 
  
Online registration will be opening mid-April; if you have any questions, please contact the [mailto:help@gmod.org GMOD help desk].
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<!-- The GMOD Summer School is a five-day course that covers the installation, configuration, and use of a number of widely-used GMOD components, including [[GBrowse]], [[Galaxy]], [[JBrowse]], [[MAKER]], [[Tripal]], [[WebApollo]], and the [[Chado|Chado database schema]]. The sessions are taught by developers of the tools, so they can give expert insight into any problems encountered. Applications are competitive, since we generally receive many more applications that we have slots.
  
<!-- [https://www.nescent.org/courses/2013/gmod/Main_Page GMOD 2013 Summer School wiki] (contents available to course participants only) -->
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If you have any questions, please contact the [mailto:help@gmod.org GMOD help desk].
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Applications have now closed for the GMOD Summer School.-->
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[http://gmodsummerschool2013.wikispaces.com/ GMOD 2013 Summer School wiki] (contents available to course participants only)
  
 
==The Course==
 
==The Course==
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The course covers the following topics in detail:
 
The course covers the following topics in detail:
 
{| class="wikitable"
 
{| class="wikitable"
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! Time slot
 
! Topic
 
! Topic
 
! Instructor
 
! Instructor
 
! Affiliation; GMOD role
 
! Affiliation; GMOD role
 
|-
 
|-
| [[Cloud|GMOD in the Cloud]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
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| Day 1, AM || [[Cloud|GMOD in the Cloud]], [[AWS walkthrough]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
 
|-
 
|-
| [[Chado]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
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| Day 2, AM || [[Chado Tutorial 2013|Chado Tutorial]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
 
|-
 
|-
| [[Galaxy]] || [[User:Clements|Dave Clements]] || [http://galaxyproject.org/ Galaxy Project], [http://emory.edu/ Emory University]<br>[[Galaxy]]
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| Day 5, AM || [[Galaxy Tutorial 2013|Galaxy Tutorial]] || [[User:Clements|Dave Clements]] || [http://galaxyproject.org/ Galaxy Project], [http://emory.edu/ Emory University]<br>[[Galaxy]]
 
|-
 
|-
| [[GBrowse]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
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| Day 4, AM || [[GBrowse]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
 
|-
 
|-
| [[GBrowse syn]] || [[User:Mckays|Sheldon McKay]] || [http://iplantcollaborative.org iPlant Collaborative], [http://www.cshl.edu CSHL]<br>[[GBrowse_syn]], [[GBrowse]]
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| Day 4, PM || [[GBrowse syn Tutorial 2013|GBrowse syn Tutorial]] || [[User:Mckays|Sheldon McKay]] || [http://iplantcollaborative.org iPlant Collaborative], [http://www.cshl.edu CSHL]<br>[[GBrowse_syn]], [[GBrowse]]
 
|-
 
|-
| [[GFF3]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
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| Day 1, AM || [[GFF3]] || [[User:Scott|Scott Cain]] || [http://oicr.on.ca/ Ontario Institute for Cancer Research]<br>GMOD Project Coordinator; [[Chado]], [[GBrowse]]
 
|-
 
|-
| [[JBrowse]] || [[User:RBuels|Robert Buels]] || [http://berkeley.edu University of California, Berkeley]<br>[[JBrowse]]
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| Day 3, AM || [[JBrowse Tutorial 2013|JBrowse Tutorial]] || [[User:RBuels|Robert Buels]] || [http://berkeley.edu University of California, Berkeley]<br>[[JBrowse]]
 
|-
 
|-
| [[MAKER]] || [[User:Bmoore|Barry Moore]] (to be confirmed) || [http://utah.edu University of Utah]<br>[[MAKER]]
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| Day 1, PM || [[MAKER Tutorial 2013|MAKER Tutorial]] || Michael Campbell and Daniel Ence || [http://utah.edu University of Utah]<br>[[MAKER]]
 
|-
 
|-
| [[SOBA]] || [[User:Bmoore|Barry Moore]] (to be confirmed) || [http://www.utah.edu University of Utah]<br>[[MAKER]]
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| Day 1, AM/PM || [[SOBA Tutorial]] || Michael Campbell and Daniel Ence || [http://www.utah.edu University of Utah]<br>[[MAKER]]
 
|-
 
|-
| [[Tripal]] || [[User:sficklin|Stephen Ficklin]] || [http://www.wsu.edu Washington State University]<br>[[Tripal]]
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| Day 2, PM || [[Tripal Tutorial v1.1|Tripal Tutorial]] || [[User:sficklin|Stephen Ficklin]] || [http://www.wsu.edu Washington State University]<br>[[Tripal]]
 
|-
 
|-
| [[WebApollo]] || [[User:Elee|Ed Lee]] (to be confirmed) || [http://www.berkeleybop.org/ Berkeley Bioinformatics Open-source Projects (BBOP)]<br>[[Apollo]], [[WebApollo]]
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| Day 3, PM || [[WebApollo Tutorial 2013|WebApollo Tutorial]] || [[User:Childers|Chris Childers]] || [http://genomes.missouri.edu/ University of Missouri]<br>[[Apollo]], [[WebApollo]]
 
|}
 
|}
 
 
Depending on the availability of an instructor, we may also have an [[Intermine]] tutorial.
 
 
  
 
==Course Work==
 
==Course Work==
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The 2013 Summer School will use Amazon Web Services to host virtual GMOD instances containing the software and demo data used during the course. See [[Cloud|GMOD in the Cloud]] for more information on the GMOD Amazon Machine Images available to the public. The tutorials used on the course will be available on this wiki for interested persons to work through.
 
The 2013 Summer School will use Amazon Web Services to host virtual GMOD instances containing the software and demo data used during the course. See [[Cloud|GMOD in the Cloud]] for more information on the GMOD Amazon Machine Images available to the public. The tutorials used on the course will be available on this wiki for interested persons to work through.
  
<!-- GMOD thanks the generous grant from the Amazon [http://aws.amazon.com/grants/ AWS in Education program], which provided free compute time on Amazon Web Services for the course tutors and participants. -->
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==Sponsors==
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[[File:NESCentLogo152.jpg|100px|right|link=http://nescent.org|NESCent]]
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GMOD thanks the [http://nescent.org National Evolutionary Synthesis Center (NESCent)] for its continued support of the GMOD project and for providing the venue for this course. NESCent is interested in outreach to groups who are underrepresented in evolutionary biology and improving evolution education, and offers resources for scientists, educators, and the general public that meet these goals.
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GMOD thanks the generous grant from the Amazon [http://aws.amazon.com/grants/ AWS in Education program], which provided free compute time on Amazon Web Services for the course tutors and participants.
  
 
[[Category:GMOD Schools]]
 
[[Category:GMOD Schools]]
 
[[Category:Tutorials]]
 
[[Category:Tutorials]]
 
[[Category:Education and Outreach]]
 
[[Category:Education and Outreach]]
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[[Category:2013 Summer School]]

Latest revision as of 21:52, 22 January 2014

2013 GMOD Summer School

Dates: Friday July 19th - Tuesday July 23rd 2013

Venue: NESCent, North Carolina



GMOD 2013 Summer School wiki (contents available to course participants only)

The Course

The summer school comprises five days of hands-on courses on GMOD component installation, configuration, and usage. Most sessions are four hours (a half day), and the evenings feature work sessions where the instructors are available to answer questions and help participants use the tools with their data. The instructors on the course are experienced component developers and GMOD project staff.

The course covers the following topics in detail:

Time slot Topic Instructor Affiliation; GMOD role
Day 1, AM GMOD in the Cloud, AWS walkthrough Scott Cain Ontario Institute for Cancer Research
GMOD Project Coordinator; Chado, GBrowse
Day 2, AM Chado Tutorial Scott Cain Ontario Institute for Cancer Research
GMOD Project Coordinator; Chado, GBrowse
Day 5, AM Galaxy Tutorial Dave Clements Galaxy Project, Emory University
Galaxy
Day 4, AM GBrowse Scott Cain Ontario Institute for Cancer Research
GMOD Project Coordinator; Chado, GBrowse
Day 4, PM GBrowse syn Tutorial Sheldon McKay iPlant Collaborative, CSHL
GBrowse_syn, GBrowse
Day 1, AM GFF3 Scott Cain Ontario Institute for Cancer Research
GMOD Project Coordinator; Chado, GBrowse
Day 3, AM JBrowse Tutorial Robert Buels University of California, Berkeley
JBrowse
Day 1, PM MAKER Tutorial Michael Campbell and Daniel Ence University of Utah
MAKER
Day 1, AM/PM SOBA Tutorial Michael Campbell and Daniel Ence University of Utah
MAKER
Day 2, PM Tripal Tutorial Stephen Ficklin Washington State University
Tripal
Day 3, PM WebApollo Tutorial Chris Childers University of Missouri
Apollo, WebApollo

Course Work

The 2013 Summer School will use Amazon Web Services to host virtual GMOD instances containing the software and demo data used during the course. See GMOD in the Cloud for more information on the GMOD Amazon Machine Images available to the public. The tutorials used on the course will be available on this wiki for interested persons to work through.

Sponsors

NESCent

GMOD thanks the National Evolutionary Synthesis Center (NESCent) for its continued support of the GMOD project and for providing the venue for this course. NESCent is interested in outreach to groups who are underrepresented in evolutionary biology and improving evolution education, and offers resources for scientists, educators, and the general public that meet these goals.

GMOD thanks the generous grant from the Amazon AWS in Education program, which provided free compute time on Amazon Web Services for the course tutors and participants.