Difference between revisions of "First-pass schedule, instructions, automation"

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[[http://www.wormbase.org/wiki/index.php?title=Caltech_documentation&action=submit back]]
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[[Caltech documentation]]<br>
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[[First-pass to Curation]]<br>
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[[First-pass_flagging_pipelines]]
  
 
=First-Pass Rotation=
 
=First-Pass Rotation=
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| Karen  ||2/16-3/1|| 7/6-7/19
 
| Karen  ||2/16-3/1|| 7/6-7/19
 
|-
 
|-
| Ranjana ||3/2-3/15 ||7/20-8/1
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| Xiaodong ||3/2-3/15 ||7/20-8/1
 
|-
 
|-
 
| Raymond ||3/16-3/29 ||8/3-8/16
 
| Raymond ||3/16-3/29 ||8/3-8/16
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| Gary ||4/13-4/26: Author forms sent out||8/31-9-13
 
| Gary ||4/13-4/26: Author forms sent out||8/31-9-13
 
|-
 
|-
| Xiaodong ||4/27-5/10: Author feedback coming in ||9/14-9/27
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| Ranjana ||4/27-5/10: Author feedback coming in ||9/14-9/27
 
|-
 
|-
 
| Erich ||5/11-5/24||9/28-10/11
 
| Erich ||5/11-5/24||9/28-10/11
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=[http://www.wormbase.org/wiki/index.php/%3DAutomation_progress%3D Automation progress]=
 
==[http://goldturtle.caltech.edu/wcat/ Textpresso's Automation Explanation and Schedule  http://goldturtle.caltech.edu/wcat/]==
 
  
 
----
 
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=First-Pass a paper=
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=Automation=
Access papers on the [http://tazendra.caltech.edu/~postgres/cgi-bin/wbpaper_editor.cgi WBPaperEditor] page
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[http://goldturtle.caltech.edu/wcat/ Textpresso's Automation Explanation and Schedule  http://goldturtle.caltech.edu/wcat/]
  
==Pick a paper and access the curation form==
 
* Go to http://tazendra.caltech.edu/~postgres/cgi-bin/wbpaper_editor.cgi
 
* Choose your name
 
* Scroll down the page and select '''"Not Curated Plus Textpresso!"''' ''The body of these papers have passed through Textpresso and should report all found datatypes in the automated pipeline in the appropriate fields.''
 
* Scroll/Page down to a paper and select "Curate!" 
 
  
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''Alternatively''
 
* Access the curation.cgi from the WBPaperID page itself
 
* Select the WBPaperID from left column to take you to the paper page-- '''ONLY SELECT PAPERS FROM WBPaper0030000 AND LATER'''
 
* Select first-pass curate
 
''Note: the paper pdf can be accessed from the paper page along with supplemental materials.''
 
  
Either action takes you to the curation.cgi (SEE BELOW)
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=First-pass forms=
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*[http://www.wormbase.org/wiki/index.php/Texpresso/Author/Curator_interim_form New textpresso/author/curator table]
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**[http://tazendra.caltech.edu/~postgres/cgi-bin/curator_first_pass.cgi Example of new curator first-pass curation.cgi]
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*[http://www.wormbase.org/wiki/index.php/First-pass_data_types_explained  Old curator first-pass table]
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*[[Author first-pass form]]
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*[[Genetics Author pass form]]
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*[[Data types used on first-pass forms]]
  
==New firstpass [http://tazendra.caltech.edu/~postgres/cgi-bin/curator_first_pass.cgi curation.cgi]==
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==[http://www.wormbase.org/wiki/index.php/Instructions_for_curators Instructions for curators for the new form]==
 
==[[Texpresso/Author/Curator interim form]]==
 
[http://www.wormbase.org/wiki/index.php/Texpresso/Author/Curator_interim_form Link to an explanation of the data types on the new curator form that combines data flagging from all three sources.]
 
  
==Old First-pass data types==
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=Instructions for curators=
[http://www.wormbase.org/wiki/index.php/First-pass_data_types_explained Link to an explanation of the data types as they existed on the old curator firstpass form]
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[http://www.wormbase.org/wiki/index.php/Instructions_for_curators Overview for curators (for the new form)]
  
==Adding new gene paper connections==
 
You can add gene paper connections through the WBPaper editor page.<br>  You can search directly for the paper on this page or you can access the paper by hitting "DISPLAY ALL!" and choosing the paper from the left column link.  You will be taken to a summary page for the paper. At the bottom of the page confirm or add new genes associated with that paper.
 
  
 
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=FP curator comments for St.Louis and Sanger structure correction data type=
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=Postgres data for individual data types=
[http://www.wormbase.org/wiki/index.php/FP_curator_comments_for_St.Louis_and_Sanger_structure_correction_data_type link to St.Louis and Sanger structure correction data type curator comments]
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*[http://www.wormbase.org/wiki/index.php/FP_curator_comments_for_St.Louis_and_Sanger_structure_correction_data_type St.Louis and Sanger structure correction data type curator comments]
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=Author first-pass form=
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----
[[project page for author first pass form]]
 
  
=Genetics author first-pass form=
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[[User:Kyook|kjy]] 19:43, 9 February 2009 (EST)
[http://www.wormbase.org/wiki/index.php/Genetics_Author_pass_form Link to the project page for GENETICS author data submission]
 
  
  
[[User:Kyook|kjy]] 19:43, 9 February 2009 (EST)
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[[Category:Curation]]

Latest revision as of 23:04, 13 August 2010

Caltech documentation
First-pass to Curation
First-pass_flagging_pipelines

First-Pass Rotation

First-Pass Curator Round 1 Round 2
Karen 2/16-3/1 7/6-7/19
Xiaodong 3/2-3/15 7/20-8/1
Raymond 3/16-3/29 8/3-8/16
Jolene 3/30-4/12: New forms active 8/17-8/30
Gary 4/13-4/26: Author forms sent out 8/31-9-13
Ranjana 4/27-5/10: Author feedback coming in 9/14-9/27
Erich 5/11-5/24 9/28-10/11
Wen 5/25- 6/7 10/12-10/35
Kimberly 6/8-6/21 10/26-11/8
WormBase re-evalutation 6/22-7/5: IWM (?)



Automation

Textpresso's Automation Explanation and Schedule http://goldturtle.caltech.edu/wcat/



First-pass forms


Instructions for curators

Overview for curators (for the new form)



Postgres data for individual data types



kjy 19:43, 9 February 2009 (EST)