|
|
(4 intermediate revisions by the same user not shown) |
Line 1: |
Line 1: |
− | <!--
| |
− | |-
| |
− | | [[Apollo]]
| |
− | | colspan="2" | {{:Apollo/tool_data | template = TutorialLinks }}
| |
− | -->
| |
− |
| |
− |
| |
| {| class="wikitable" | | {| class="wikitable" |
| ! Component | | ! Component |
− | ! Title | + | ! Title, Description |
− | ! Description
| + | |
| |- | | |- |
− | ! rowspan="3" | [[Apollo]] | + | ! [[Apollo]] |
− | | '''[[Apollo Tutorial]]''' | + | | {{:Apollo/tool_data | template = TutorialLinks }} |
− | | The Apollo session from the 2011 Spring Training.
| + | |
− | |-
| + | |
− | | '''[http://apollo.berkeleybop.org/current/userguide.html Apollo Userguide]'''
| + | |
− | | A comprehensive guide to installing and using Apollo.
| + | |
− | |-
| + | |
− | | '''[http://www.dynamicgene.dnalc.org 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 [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. | + | |
| |- | | |- |
| ! [[BioMart]] | | ! [[BioMart]] |
− | | '''[[BioMart Tutorial]]''' | + | | |
− | | Based on the BioMart workshop at the [[October 2011 GMOD Meeting]].
| + | ; [[BioMart Tutorial]] |
| + | : Based on the BioMart workshop at the [[October 2011 GMOD Meeting]]. |
| |- | | |- |
− | ! rowspan="2" | [[Chado]] | + | ! [[Chado]] |
− | | '''[[Chado Tutorial]]''' | + | | |
− | | Based on the Chado session from the [[2012 GMOD Summer School]].
| + | ; [[Chado Tutorial]] |
| + | : Based on the Chado session from the [[2013 GMOD Summer School]]. |
| + | ; [[Artemis-Chado Integration Tutorial]] |
| + | : Based on the session of the same title from the [[2009 GMOD Summer School - Europe]]. |
| |- | | |- |
− | | '''[[Artemis-Chado Integration Tutorial]]'''
| + | ! [[Cloud|GMOD in the Cloud]] |
− | | Based on the session of the same title from the [[2009 GMOD Summer School - Europe]]. | + | | |
| + | ; [[AWS walkthrough]] |
| + | : A gentle introduction to getting a machine up and running on the Amazon Cloud |
| |- | | |- |
| ! [[CMap]] | | ! [[CMap]] |
− | | '''[http://www.gramene.org/tutorials/cmap.html Gramene CMap User Tutorial]''' | + | | {{:CMap/tool_data | template = TutorialLinks }} |
− | | 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. | + | |
| |- | | |- |
− | ! rowspan="6" | [[Galaxy]] | + | ! [[Galaxy]] |
− | | '''[[Galaxy Tutorial]]''' | + | | {{:Galaxy/tool_data | template = TutorialLinks }} |
− | | How to install Galaxy. Based on [[Galaxy]] session from the [[2012 GMOD Summer School]] | + | |
| |- | | |- |
− | | '''[http://usegalaxy.org/galaxy101 Galaxy 101]'''
| + | ! [[GBrowse]] |
− | | An introduction to using Galaxy. | + | | {{:GBrowse/tool_data | template = TutorialLinks }} |
| |- | | |- |
− | | '''[http://wiki.galaxyproject.org/Learn/Screencasts Galaxy Screencasts]'''
| + | ! [[GBrowse_syn]] |
− | | Short screencasts showing how to do many common tasks using [[Galaxy]]. | + | | {{:GBrowse_syn/tool_data | template = TutorialLinks }} |
| |- | | |- |
− | | '''[http://wiki.galaxyproject.org/Learn#Other_Tutorials Community Tutorials List]'''
| + | ! [[GFF3]] |
− | | List of online tutorials written by the Galaxy Community.
| + | | |
− | |-
| + | ; [[GFF3]] |
− | | '''[http://bit.ly/gxyRNASEX RNA-Seq Example]'''
| + | : Introduction to and documentation of the GFF3 format |
− | | An introduction to NGS processing (specifically RNA-Seq) with [[Galaxy]].
| + | |
− | |- | + | |
− | | '''[http://www.openhelix.com/cgi/tutorialInfo.cgi?id=82 OpenHelix Galaxy User Tutorial]'''
| + | |
− | | A Flash based tutorial on using Galaxy. Provided by [http://www.openhelix.com OpenHelix]. Tutorial includes slides, handouts and exercises. Requires subscription.
| + | |
− | |-
| + | |
− | ! rowspan="4" | [[GBrowse]]
| + | |
− | | '''[http://www.openhelix.com/gbrowse GBrowse User Tutorial]'''
| + | |
− | | A Flash based tutorial on using GBrowse. Provided by [http://www.openhelix.com OpenHelix]. Tutorial includes slides, handouts and exercises.
| + | |
− | |-
| + | |
− | | '''{{GBrowseAdminTutorialLink|GBrowse Administration Tutorial}}'''
| + | |
− | | Detailed explanation of how to install and configure [[GBrowse]]. An administration tutorial is also available for {{GBrowse1AdminTutorialLink|GBrowse 1.x}}
| + | |
− | |-
| + | |
− | | '''[[GBrowse NGS Tutorial]]'''
| + | |
− | | 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.
| + | |
− | |-
| + | |
− | | '''[[GBrowse Tutorial]]'''
| + | |
− | | Based on the GBrowse session from the [[2012 GMOD Summer School]]. This relies heavily on the {{GBrowseAdminTutorialLink| GBrowse Administration Tutorial}}.
| + | |
− | |-
| + | |
− | ! [[GBrowse_syn]]
| + | |
− | | '''[[GBrowse_syn Tutorial]]'''
| + | |
− | | Based on the GBrowse_syn session from the [[2012 GMOD Summer School]].
| + | |
| |- | | |- |
| ! [[JBrowse]] | | ! [[JBrowse]] |
− | | '''[[JBrowse Tutorial]]''' | + | | {{:JBrowse/tool_data | template = TutorialLinks }} |
− | | Based on the JBrowse session from the [[2012 GMOD Summer School]]. | + | |
| |- | | |- |
| ! [[MAKER]] | | ! [[MAKER]] |
− | | '''[[MAKER Tutorial]]''' | + | | {{:MAKER/tool_data | template = TutorialLinks }} |
− | | Based on the MAKER session from the [[2012 GMOD Summer School]]. | + | |- |
| + | ! [[Pathway Tools]] |
| + | | {{:Pathway Tools/tool_data | template = TutorialLinks }} |
| |- | | |- |
| ! [[SOBA]] | | ! [[SOBA]] |
− | | '''[[SOBA Tutorial]]''' | + | | {{:SOBA/tool_data | template = TutorialLinks }} |
− | | Based on the SOBA session from the [[2012 GMOD Summer School]]. | + | |
| |- | | |- |
| ! [[Tripal]] | | ! [[Tripal]] |
− | | '''[[Tripal Tutorial]]''' | + | | {{:Tripal/tool_data | template = TutorialLinks }} |
− | | Based on the Tripal session from the [[2012 GMOD Summer School]]. | + | |
| |- | | |- |
| ! [[WebApollo]] | | ! [[WebApollo]] |
− | | '''[[WebApollo Tutorial]]''' | + | | {{:WebApollo/tool_data | template = TutorialLinks }} |
− | | Based on the WebApollo session from the [[2012 GMOD Summer School]]. | + | |
| |} | | |} |