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Difference between revisions of "Template:TutorialList"

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| [[Apollo]]
 
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| colspan="2" | {{:Apollo/tool_data | template = TutorialLinks }}
 
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{| class="wikitable"
 
{| class="wikitable"
 
! Component
 
! Component
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! Title
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! Title, Description
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! Description
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|-
 
|-
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! rowspan="3" | [[Apollo]]
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! [[Apollo]]
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| '''[[Apollo Tutorial]]'''
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| {{:Apollo/tool_data | template = TutorialLinks }}
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| The Apollo session from the 2011 Spring Training.
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|-
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| '''[http://apollo.berkeleybop.org/current/userguide.html Apollo Userguide]'''
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| A comprehensive guide to installing and using Apollo.
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|-
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| '''[http://www.dynamicgene.dnalc.org Apollo tutorials at the Dynamic Gene web site]'''
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| Flash based tutorials on how to use Apollo, using rice as an example.  Sections of particular interest are [http://www.dynamicgene.dnalc.org/annotation/annotation.html annotation tutorial], on how to use Apollo, and [http://www.dynamicgene.dnalc.org/resources/resources.html resources], on how to download sample data and install Apollo on an MS Windows system.
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|-
 
|-
 
! [[BioMart]]
 
! [[BioMart]]
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| '''[[BioMart Tutorial]]'''
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|  
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| Based on the BioMart workshop at the [[October 2011 GMOD Meeting]].
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; [[BioMart Tutorial]]
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: Based on the BioMart workshop at the [[October 2011 GMOD Meeting]].
 
|-
 
|-
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! rowspan="2" | [[Chado]]
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! [[Chado]]
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| '''[[Chado Tutorial]]'''
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|
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| Based on the Chado session from the [[2012 GMOD Summer School]].
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; [[Chado Tutorial]]
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|-
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: Based on the Chado session from the [[2012 GMOD Summer School]].
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| '''[[Artemis-Chado Integration Tutorial]]'''
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; [[Artemis-Chado Integration Tutorial]]
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| Based on the session of the same title from the [[2009 GMOD Summer School - Europe]].
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: Based on the session of the same title from the [[2009 GMOD Summer School - Europe]].
 
|-
 
|-
 
! [[CMap]]
 
! [[CMap]]
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| '''[http://www.gramene.org/tutorials/cmap.html Gramene CMap User Tutorial]'''
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| {{:CMap/tool_data | template = TutorialLinks }}
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| Available in both [http://www.gramene.org/tutorials/cmap_tutorial.pdf PDF] and [http://www.gramene.org/tutorials/cmap_tutorial.ppt PowerPoint] formats.  This explains how to use CMap in the context of Gramene.
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|-
 
|-
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! rowspan="6" | [[Galaxy]]
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! [[Galaxy]]
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| '''[[Galaxy Tutorial]]'''
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|  
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| How to install Galaxy. Based on [[Galaxy]] session from the [[2012 GMOD Summer School]]
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; [[Galaxy Tutorial]]
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: How to install Galaxy. Based on [[Galaxy]] session from the [[2012 GMOD Summer School]]
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; [http://usegalaxy.org/galaxy101 Galaxy 101]
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: An introduction to using Galaxy.
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; [http://wiki.galaxyproject.org/Learn/Screencasts Galaxy Screencasts]
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: Short screencasts showing how to do many common tasks using [[Galaxy]].
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; [http://wiki.galaxyproject.org/Learn#Other_Tutorials Community Tutorials List]
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: List of online tutorials written by the Galaxy Community.
 +
; [http://bit.ly/gxyRNASEX RNA-Seq Example]
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: An introduction to NGS processing (specifically RNA-Seq) with [[Galaxy]].
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; [http://www.openhelix.com/cgi/tutorialInfo.cgi?id=82 OpenHelix Galaxy User Tutorial]
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: A Flash based tutorial on using Galaxy.  Provided by [http://www.openhelix.com OpenHelix].  Tutorial includes slides, handouts and exercises.  Requires subscription.
 
|-
 
|-
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| '''[http://usegalaxy.org/galaxy101 Galaxy 101]'''
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! [[GBrowse]]
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| An introduction to using Galaxy.
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|
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|-
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; [http://www.openhelix.com/gbrowse GBrowse User Tutorial]
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| '''[http://wiki.galaxyproject.org/Learn/Screencasts Galaxy Screencasts]'''
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: A Flash based tutorial on using GBrowse.  Provided by [http://www.openhelix.com OpenHelix].  Tutorial includes slides, handouts and exercises.
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| Short screencasts showing how to do many common tasks using [[Galaxy]].
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; {{GBrowseAdminTutorialLink|GBrowse Administration Tutorial}}
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|-
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: Detailed explanation of how to install and configure [[GBrowse]].  An administration tutorial is also available for {{GBrowse1AdminTutorialLink|GBrowse 1.x}}
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| '''[http://wiki.galaxyproject.org/Learn#Other_Tutorials Community Tutorials List]'''
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; [[GBrowse NGS Tutorial]]
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| List of online tutorials written by the Galaxy Community.
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: Instructions on how to visualize [[next generation sequencing]] data in GBrowse using [http://samtools.sourceforge.net SAMtools].  The tutorial  includes a starting VMware image, and uses the example data that comes with SAMtools.
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|-
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; [[GBrowse Tutorial]]
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| '''[http://bit.ly/gxyRNASEX RNA-Seq Example]'''
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: Based on the GBrowse session from the [[2012 GMOD Summer School]].  This relies heavily on the {{GBrowseAdminTutorialLink| GBrowse Administration Tutorial}}.
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| An introduction to NGS processing (specifically RNA-Seq) with [[Galaxy]].
+
−
|-
+
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| '''[http://www.openhelix.com/cgi/tutorialInfo.cgi?id=82 OpenHelix Galaxy User Tutorial]'''
+
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| A Flash based tutorial on using Galaxy.  Provided by [http://www.openhelix.com OpenHelix].  Tutorial includes slides, handouts and exercises.  Requires subscription.
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|-
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! rowspan="4" | [[GBrowse]]
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| '''[http://www.openhelix.com/gbrowse GBrowse User Tutorial]'''
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| A Flash based tutorial on using GBrowse.  Provided by [http://www.openhelix.com OpenHelix].  Tutorial includes slides, handouts and exercises.
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|-
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| '''{{GBrowseAdminTutorialLink|GBrowse Administration Tutorial}}'''
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| Detailed explanation of how to install and configure [[GBrowse]].  An administration tutorial is also available for {{GBrowse1AdminTutorialLink|GBrowse 1.x}}
+
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|-
+
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| '''[[GBrowse NGS Tutorial]]'''
+
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| Instructions on how to visualize [[next generation sequencing]] data in GBrowse using [http://samtools.sourceforge.net SAMtools].  The tutorial  includes a starting [[VMware]] image, and uses the example data that comes with SAMtools.
+
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|-
+
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| '''[[GBrowse Tutorial]]'''
+
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| Based on the GBrowse session from the [[2012 GMOD Summer School]].  This relies heavily on the {{GBrowseAdminTutorialLink| GBrowse Administration Tutorial}}.
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|-
 
|-
 
! [[GBrowse_syn]]
 
! [[GBrowse_syn]]
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| '''[[GBrowse_syn Tutorial]]'''
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|
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| Based on the GBrowse_syn session from the [[2012 GMOD Summer School]].
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; [[GBrowse_syn Tutorial]]
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: Based on the GBrowse_syn session from the [[2012 GMOD Summer School]].
 
|-
 
|-
 
! [[JBrowse]]
 
! [[JBrowse]]
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| '''[[JBrowse Tutorial]]'''
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| {{:JBrowse/tool_data | template = TutorialLinks }}
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| Based on the JBrowse session from the [[2012 GMOD Summer School]].
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|-
 
|-
 
! [[MAKER]]
 
! [[MAKER]]
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| '''[[MAKER Tutorial]]'''
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| {{:MAKER/tool_data | template = TutorialLinks }}
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| Based on the MAKER session from the [[2012 GMOD Summer School]].
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|-
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! [[Pathway Tools]]
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| {{:Pathway Tools/tool_data | template = TutorialLinks }}
 
|-
 
|-
 
! [[SOBA]]
 
! [[SOBA]]
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| '''[[SOBA Tutorial]]'''
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| {{:SOBA/tool_data | template = TutorialLinks }}
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| Based on the SOBA session from the [[2012 GMOD Summer School]].
+
 
|-
 
|-
 
! [[Tripal]]
 
! [[Tripal]]
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| '''[[Tripal Tutorial]]'''
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|
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| Based on the Tripal session from the [[2012 GMOD Summer School]].
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; [[Tripal Tutorial]]
 +
: Based on the Tripal session from the [[2012 GMOD Summer School]].
 
|-
 
|-
 
! [[WebApollo]]
 
! [[WebApollo]]
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| '''[[WebApollo Tutorial]]'''
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| {{:WebApollo/tool_data | template = TutorialLinks }}
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| Based on the WebApollo session from the [[2012 GMOD Summer School]].
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|}
 
|}

Revision as of 00:46, 15 February 2013

Component Title, Description
Apollo
Apollo Tutorial 2011
The Apollo session from the 2011 GMOD Spring Training
Apollo Tutorial 2010
The Apollo session from the 2010 GMOD Summer School - Americas.
Apollo tutorials at the Dynamic Gene web site.
Flash based tutorials on how to use Apollo, using rice as an example. Sections of particular interest are
  • Annotation - how to use Apollo
  • Resources - how to download sample data and install Apollo on an MS Windows system.
Apollo user guide
The current user guide, which has comprehensive instructions for installation and usage of Apollo.
BioMart
BioMart Tutorial
Based on the BioMart workshop at the October 2011 GMOD Meeting.
Chado
Chado Tutorial
Based on the Chado session from the 2012 GMOD Summer School.
Artemis-Chado Integration Tutorial
Based on the session of the same title from the 2009 GMOD Summer School - Europe.
CMap
Tutorial @ Gramene
Galaxy
Galaxy Tutorial
How to install Galaxy. Based on Galaxy session from the 2012 GMOD Summer School
Galaxy 101
An introduction to using Galaxy.
Galaxy Screencasts
Short screencasts showing how to do many common tasks using Galaxy.
Community Tutorials List
List of online tutorials written by the Galaxy Community.
RNA-Seq Example
An introduction to NGS processing (specifically RNA-Seq) with Galaxy.
OpenHelix Galaxy User Tutorial
A Flash based tutorial on using Galaxy. Provided by OpenHelix. Tutorial includes slides, handouts and exercises. Requires subscription.
GBrowse
GBrowse User Tutorial
A Flash based tutorial on using GBrowse. Provided by OpenHelix. Tutorial includes slides, handouts and exercises.
GBrowse2 Admin Tutorial
Detailed explanation of how to install and configure GBrowse. An administration tutorial is also available for GBrowse 1.x
GBrowse NGS Tutorial
Instructions on how to visualize next generation sequencing data in GBrowse using SAMtools. The tutorial includes a starting VMware image, and uses the example data that comes with SAMtools.
GBrowse Tutorial
Based on the GBrowse session from the 2012 GMOD Summer School. This relies heavily on the GBrowse2 Admin Tutorial.
GBrowse_syn
GBrowse_syn Tutorial
Based on the GBrowse_syn session from the 2012 GMOD Summer School.
JBrowse
JBrowse Tutorial covering installation and configuration
part of the 2013 GMOD Summer School
Getting Started with JBrowse Tutorial
part of the JBrowse documentation
Exploration of structural variation in the tomato clade using JBrowse
Tutorial explaining how to browse structural variants from the 150+ tomato genome resequencing project (http://www.tomatogenome.net) using JBrowse
MAKER
MAKER Tutorial
taught as part of the 2013 GMOD Summer School
Pathway Tools


Pathway Tools slides
General information about Pathway Tools, including slides from tutorials and user guides
Upcoming Events
Pathway Tools tutorials and workshops
SOBA
SOBA Tutorial
taught as part of the 2013 GMOD Summer School
Tripal
Tripal Tutorial
Based on the Tripal session from the 2012 GMOD Summer School.
WebApollo
WebApollo Tutorial
taught as part of the 2013 GMOD Summer School
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