Difference between revisions of "User:Scott/Schedule Draft"
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| − | ! rowspan=" | + | ! rowspan="9" style="background-color: #bbffff" | Saturday<br />August 25 |
! style="background-color: #ccffff" | 8:30am | ! style="background-color: #ccffff" | 8:30am | ||
| style="background-color: #ddffff" align="center" | '''[[Introduction]] and [[GMOD Overview|Overview]]'''<br />[[User:Scott|Scott Cain]] and [[User:Girlwithglasses|Amelia Ireland]]<br />Participant and instructor introductions, how the GMOD project works, what software tools are available in GMOD, how they interoperate, what resources are needed to get a GMOD installation up and running, and course overview | | style="background-color: #ddffff" align="center" | '''[[Introduction]] and [[GMOD Overview|Overview]]'''<br />[[User:Scott|Scott Cain]] and [[User:Girlwithglasses|Amelia Ireland]]<br />Participant and instructor introductions, how the GMOD project works, what software tools are available in GMOD, how they interoperate, what resources are needed to get a GMOD installation up and running, and course overview | ||
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! style="background-color: #ccffff" | 10:40am | ! style="background-color: #ccffff" | 10:40am | ||
| − | | style="background-color: #ddffff" align="center" | '''[[ | + | | style="background-color: #ddffff" align="center" | '''[[AWS Setup]]'''<br />'''Everyone'''<br />Get the GMOD course AWS images up and running. |
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! style="background-color: #ccffff" | 11:45pm | ! style="background-color: #ccffff" | 11:45pm | ||
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| style="background-color: #ddffff" align="center" | '''[[GFF3]] and [[SOBA]]'''<br />'''[[User:Scott|Scott Cain]] and [[User:Bmoore|Barry Moore]]'''<br />GFF3 is the standard genome annotation format used by GMOD's genomic tools and many others. [[SOBA]] is a [[GFF3]] analysis package. | | style="background-color: #ddffff" align="center" | '''[[GFF3]] and [[SOBA]]'''<br />'''[[User:Scott|Scott Cain]] and [[User:Bmoore|Barry Moore]]'''<br />GFF3 is the standard genome annotation format used by GMOD's genomic tools and many others. [[SOBA]] is a [[GFF3]] analysis package. | ||
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| − | ! style="background-color: # | + | ! style="background-color: #ccffdd" | 8:30am |
| − | | style="background-color: # | + | | style="background-color: #ddffdd" align="center" | '''[[MAKER]]'''<br />[[User:Bmoore|Barry Moore]]<br />[[gmod:MAKER|MAKER]] overview, installation, basic configuration for annotating genomic sequence, re-annotation options, and improving annotation quality; Advanced [[gmod:MAKER|MAKER]] configuration, re-annotation options, and improving annotation quality |
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! style="background-color: #ccffff" | 4:00pm | ! style="background-color: #ccffff" | 4:00pm | ||
| style="background-color: #ddffff" align="center" | '''Reception'''<br />Get to know your fellow course participants ''and'' [http://nescent.org/dir/ NESCent researchers]. That, and, free beer. | | style="background-color: #ddffff" align="center" | '''Reception'''<br />Get to know your fellow course participants ''and'' [http://nescent.org/dir/ NESCent researchers]. That, and, free beer. | ||
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! style="background-color: #ccffff" | 6:00pm | ! style="background-color: #ccffff" | 6:00pm | ||
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! style="background-color: #ccffff" | 7:30pm | ! style="background-color: #ccffff" | 7:30pm | ||
| − | | style="background-color: #ddffff" align="center" | '''[[GFF3]], [[SOBA]] and [[ | + | | style="background-color: #ddffff" align="center" | '''[[GFF3]], [[SOBA]] and [[MAKER]] Work Session'''<br />Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. |
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! style="background-color: #ccffff" | 9:00pm | ! style="background-color: #ccffff" | 9:00pm | ||
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! rowspan="7" style="background-color: #bbffcc" | Sunday<br />August 26 | ! rowspan="7" style="background-color: #bbffcc" | Sunday<br />August 26 | ||
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| − | ! style="background-color: # | + | ! style="background-color: #ccffff" | 8:30pm |
| − | | style="background-color: # | + | | style="background-color: #ddffff" align="center" | '''[[JBrowse]]'''<br />[[User:RobertBuels|Rob Buels]]<br />[[gmod:JBrowse|JBrowse]] installation, configuration and administration; converting [[gmod:GFF3|GFF3]] to [[gmod:Glossary#JSON|JSON]] and loading it into JBrowse. |
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! style="background-color: #ccffdd" | 12:30pm | ! style="background-color: #ccffdd" | 12:30pm | ||
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! style="background-color: #ccffdd" | 7:30pm | ! style="background-color: #ccffdd" | 7:30pm | ||
| − | | style="background-color: #ddffdd" align="center" | '''[[ | + | | style="background-color: #ddffdd" align="center" | '''[[JBrowse]] and [[Chado]] Work Session'''<br />Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. |
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! style="background-color: #ccffdd" | 9:00pm | ! style="background-color: #ccffdd" | 9:00pm | ||
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! rowspan="7" style="background-color: #ffffaa"| Monday<br />August 27 | ! rowspan="7" style="background-color: #ffffaa"| Monday<br />August 27 | ||
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| − | ! style="background-color: # | + | ! style="background-color: #ffcccc" | 8:30pm |
| − | | style="background-color: # | + | | style="background-color: #ffdddd" align="center" |'''[[Galaxy]]'''<br />[[User:Clements|Dave Clements]]<br />Introduction; Installation and configuration of [[gmod:Galaxy|Galaxy]]; Defining your own tools; ... |
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! style="background-color: #ffffbb" | 12:30pm | ! style="background-color: #ffffbb" | 12:30pm | ||
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| colspan="3" | | | colspan="3" | | ||
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| − | ! rowspan=" | + | ! rowspan="7" style="background-color: #ffccaa" | Tuesday<br />August 28 |
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| − | ! style="background-color: # | + | ! style="background-color: #ffffbb" | 8:30am |
| − | | style="background-color: # | + | | style="background-color: #ffffcc" align="center" |'''[[Tripal]]'''<br />[[User:Sficklin|Stephen Ficklin]]<br />[[gmod:Tripal|Tripal]] is a web front end to [[gmod:Chado|Chado]] databases built on [http://www.drupal.org/ Drupal]. This class will introduce Drupal and Tripal architecture, and then cover Tripal installation, configuration and administration. |
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! style="background-color: #ffddcc" | 12:30pm | ! style="background-color: #ffddcc" | 12:30pm | ||
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! style="background-color: #ffddcc" | 1:45pm | ! style="background-color: #ffddcc" | 1:45pm | ||
| − | | style="background-color: #ffeedd" align="center" | '''[[ | + | | style="background-color: #ffeedd" align="center" |'''[[GBrowse]]'''<br />[[User:ScottCain|Scott Cain]]<br /> |
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! style="background-color: #ffddcc" | 6:00pm | ! style="background-color: #ffddcc" | 6:00pm | ||
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| colspan="3" | | | colspan="3" | | ||
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| − | ! rowspan=" | + | ! rowspan="7" style="background-color: #ffbbbb" | Wednesday<br />August 29 |
| − | ! style="background-color: # | + | |- |
| − | | style="background-color: # | + | ! style="background-color: #ffddcc" | 8:30pm |
| + | | style="background-color: #ffeedd" align="center" | '''[[Apollo]]'''<br />[[User:Elee|Ed Lee]]<br />Overview, basic installation, basic configuration, reading/writing data, and remote analyses. Custom installation (building Apollo from source), advanced configuration, and setting up customized Java Web Start instance. | ||
|- | |- | ||
! style="background-color: #ffcccc" | 12:30pm | ! style="background-color: #ffcccc" | 12:30pm | ||
| style="background-color: #ffdddd" align="center" | '''Lunch'''<br />on your own, on nearby Ninth Street | | style="background-color: #ffdddd" align="center" | '''Lunch'''<br />on your own, on nearby Ninth Street | ||
|- | |- | ||
| − | ! style="background-color: #ffcccc" | 1: | + | ! style="background-color: #ffcccc" | 1:45am |
| − | | style="background-color: #ffdddd" align="center" |'''[[ | + | | style="background-color: #ffdddd" align="center" |'''[[GBrowse_syn]]'''<br />[[User:Mckays|Sheldon McKay]] |
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! style="background-color: #ffcccc" | 5:45pm | ! style="background-color: #ffcccc" | 5:45pm | ||
Revision as of 19:12, 29 July 2012
Dave leaves on the 28th Sheldon arrives on the 27th
| Date | Time | Session |
|---|---|---|
| Saturday August 25 |
8:30am | Introduction and Overview Scott Cain and Amelia Ireland Participant and instructor introductions, how the GMOD project works, what software tools are available in GMOD, how they interoperate, what resources are needed to get a GMOD installation up and running, and course overview |
| 10:40am | AWS Setup Everyone Get the GMOD course AWS images up and running. | |
| 11:45pm | Lunch Catered, at NESCent | |
| 1:00pm | GFF3 and SOBA Scott Cain and Barry Moore GFF3 is the standard genome annotation format used by GMOD's genomic tools and many others. SOBA is a GFF3 analysis package. | |
| 8:30am | MAKER Barry Moore MAKER overview, installation, basic configuration for annotating genomic sequence, re-annotation options, and improving annotation quality; Advanced MAKER configuration, re-annotation options, and improving annotation quality | |
| 4:00pm | Reception Get to know your fellow course participants and NESCent researchers. That, and, free beer. | |
| 6:00pm | Dinner on your own, on nearby Ninth Street | |
| 7:30pm | GFF3, SOBA and MAKER Work Session Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. | |
| 9:00pm | Day ends | |
| Sunday August 26 | ||
| 8:30pm | JBrowse Rob Buels JBrowse installation, configuration and administration; converting GFF3 to JSON and loading it into JBrowse. | |
| 12:30pm | Lunch on your own, on nearby Ninth Street | |
| 1:45pm | Chado Scott Cain | |
| 6:00pm | Dinner on your own, on nearby Ninth Street | |
| 7:30pm | JBrowse and Chado Work Session Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. | |
| 9:00pm | Day ends | |
| Monday August 27 | ||
| 8:30pm | Galaxy Dave Clements Introduction; Installation and configuration of Galaxy; Defining your own tools; ... | |
| 12:30pm | Lunch on your own, on nearby Ninth Street | |
| 1:45pm | InterMine Alex Kalderimis InterMine installation and configuration. | |
| 6:00pm | Dinner on your own, on nearby Ninth Street | |
| 7:30pm | Tripal and InterMine Work Session Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. | |
| 9:00pm | Day ends | |
| Tuesday August 28 | ||
| 8:30am | Tripal Stephen Ficklin Tripal is a web front end to Chado databases built on Drupal. This class will introduce Drupal and Tripal architecture, and then cover Tripal installation, configuration and administration. | |
| 12:30pm | Lunch on your own, on nearby Ninth Street | |
| 1:45pm | GBrowse Scott Cain | |
| 6:00pm | Dinner on your own, on nearby Ninth Street | |
| 7:30pm | GBrowse and Apollo Work Session Your chance to ask more detailed questions and apply what you learned in today's sessions to your own data. The instructors for the day will be available. | |
| 9:00pm | Day ends | |
| Wednesday August 29 | ||
| 8:30pm | Apollo Ed Lee Overview, basic installation, basic configuration, reading/writing data, and remote analyses. Custom installation (building Apollo from source), advanced configuration, and setting up customized Java Web Start instance. | |
| 12:30pm | Lunch on your own, on nearby Ninth Street | |
| 1:45am | GBrowse_syn Sheldon McKay | |
| 5:45pm | Resources and Wrapup Scott Cain | |
| 6:30 | Spring Training Ends | |
| 7:00 pm | Closing Dinner | |
