Curation Jamboree Oct 2011 - Revision history

Khanspers: removed IRC link

2016-01-29T22:35:10Z

removed IRC link

←Older revision		Revision as of 22:35, 29 January 2016
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	Have you always wanted to contribute to WikiPathways but didn't know where to start? Here's your chance! We are organizing our next curation event to improve the quality and extent of our pathways. Curation events are open to all registered WikiPathways users, no prior experience necessary!		Have you always wanted to contribute to WikiPathways but didn't know where to start? Here's your chance! We are organizing our next curation event to improve the quality and extent of our pathways. Curation events are open to all registered WikiPathways users, no prior experience necessary!
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-	~~[[Support_chat_channel\|>>> JOIN THE LIVE CHAT <<<]]~~
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	* When: Thursday and Friday, October 6-7, 2011		* When: Thursday and Friday, October 6-7, 2011

Khanspers: Added participant list

2014-10-21T21:27:14Z

Added participant list

←Older revision		Revision as of 21:27, 21 October 2014
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	* Add the citation to the Bibliography		* Add the citation to the Bibliography
	* [[Pathway:WP339\|Literature example]]		* [[Pathway:WP339\|Literature example]]
		+
		+	== Participants ==
		+	[[User:AlexanderPico\|Alexander Pico]], [[User:Khanspers\|Kristina Hanspers]], [[User:Thomas\|Thomas Kelder]], [[User:MartijnVanIersel\|Martijn van Iersel]], [[User:Nsalomonis\|Nathan Salomonis]], [[User:Mkutmon\|Martina Kutmon]], [[User:Eduati\|Federica Eduati]]

AlexanderPico: /* Add description */

2011-10-06T18:28:39Z

Add description

←Older revision		Revision as of 18:28, 6 October 2011
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	==== Add description ====		==== Add description ====
-	# Find pathways with missing descriptions [~~http://www.wikipathways.org//index.php?title=~~Special:SpecialCurationTags ~~showPathwaysFor=Curation:MissingDescription~~ here]	+	# Find pathways with missing descriptions using the Show Pathways link per curation tag [[Special:SpecialCurationTags\|here]]
	# A description can be from an outside source (publication, textbook, website) or it can be your own original description. Instructions for how to add descriptions to pathways can be found in the [[Help:Tutorial:Step_10\|tutorial]].		# A description can be from an outside source (publication, textbook, website) or it can be your own original description. Instructions for how to add descriptions to pathways can be found in the [[Help:Tutorial:Step_10\|tutorial]].
	# If you add a description copied from an outside source, please cite the source. Some common sources for descriptions and details on how to cite them are listed below.		# If you add a description copied from an outside source, please cite the source. Some common sources for descriptions and details on how to cite them are listed below.

AlexanderPico: /* Connect interactions */

2011-10-06T18:24:08Z

Connect interactions

←Older revision		Revision as of 18:24, 6 October 2011
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	==== Connect interactions ====		==== Connect interactions ====
-	A pathway may be tagged with the [[Template:Curation:NoInteractions\|Unconnected interactions tag]] anytime ANY lines in the pathway are not connected to another object in the pathway. This includes lines that are purely graphical and that shouldn't be connected to objects.	+	A pathway may be tagged with the [[Template:Curation:NoInteractions\|Unconnected interactions tag]] anytime ANY lines in the pathway are not connected to another object in the pathway. This includes lines that are purely graphical and that shouldn't be connected to objects. You can list pathways per curation tag [[Special:SpecialCurationTags\|here]].
	# To find out which lines are unconnected, click the ''Edit'' button to open the pathway in the editor and click Ctrl+L to highlight all unconnected lines.		# To find out which lines are unconnected, click the ''Edit'' button to open the pathway in the editor and click Ctrl+L to highlight all unconnected lines.
	# For lines representing interactions between datanodes or between datanodes and other objects, connect any unconnected lines according to instructions in [[Help:Editing_Pathways#Adding_connectors_between_objects\|Help]].		# For lines representing interactions between datanodes or between datanodes and other objects, connect any unconnected lines according to instructions in [[Help:Editing_Pathways#Adding_connectors_between_objects\|Help]].

AlexanderPico at 03:55, 2 October 2011

2011-10-02T03:55:45Z

←Older revision		Revision as of 03:55, 2 October 2011
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	* When: Thursday and Friday, October 6-7, 2011		* When: Thursday and Friday, October 6-7, 2011
	* Support: WikiPathways admins and curators will host local events in San Francisco (US), Cambridge (UK) and Maastricht (NL) and will also be available in an online chat channel during the event to answer all your questions.		* Support: WikiPathways admins and curators will host local events in San Francisco (US), Cambridge (UK) and Maastricht (NL) and will also be available in an online chat channel during the event to answer all your questions.
		+	* Local meetups:
		+	** San Francisco: Gladstone Institutes, Thursday Oct 6, 10am-4pm, lobby A; and Friday Oct 7, 10am-4pm, conference room 264A

	== Getting started ==		== Getting started ==

AlexanderPico at 01:21, 14 September 2011

2011-09-14T01:21:56Z

←Older revision		Revision as of 01:21, 14 September 2011
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	'''Join us for a curation jamboree!'''		'''Join us for a curation jamboree!'''

-	Have you always wanted to contribute to WikiPathways but didn't know where to start? Here's your chance! We are organizing our ~~third~~ curation event to improve the quality and extent of our pathways. Curation events are open to all registered WikiPathways users, no prior experience necessary!	+	Have you always wanted to contribute to WikiPathways but didn't know where to start? Here's your chance! We are organizing our next curation event to improve the quality and extent of our pathways. Curation events are open to all registered WikiPathways users, no prior experience necessary!


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-	* When: October 6-7, 2011	+	* When: Thursday and Friday, October 6-7, 2011
-	* Support: WikiPathways admins and curators will host local events in San Francisco (US), Cambridge (UK) and Maastricht (NL) and will also be available in an online chat channel during the event to answer all your questions~~. Details to follow~~.	+	* Support: WikiPathways admins and curators will host local events in San Francisco (US), Cambridge (UK) and Maastricht (NL) and will also be available in an online chat channel during the event to answer all your questions.

	== Getting started ==		== Getting started ==

Khanspers at 04:20, 13 September 2011

2011-09-13T04:20:07Z

Khanspers: /* Connect interactions */

2011-09-13T04:17:40Z

Connect interactions

←Older revision		Revision as of 04:17, 13 September 2011
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	==== Connect interactions ====		==== Connect interactions ====
	A pathway may be tagged with the [[Template:Curation:NoInteractions\|Unconnected interactions tag]] anytime ANY lines in the pathway are not connected to another object in the pathway. This includes lines that are purely graphical and that shouldn't be connected to objects.		A pathway may be tagged with the [[Template:Curation:NoInteractions\|Unconnected interactions tag]] anytime ANY lines in the pathway are not connected to another object in the pathway. This includes lines that are purely graphical and that shouldn't be connected to objects.
-	* To find out which lines are unconnected, click the ''Edit'' button to open the pathway in the editor and click Ctrl+L to highlight all unconnected lines.	+	# To find out which lines are unconnected, click the ''Edit'' button to open the pathway in the editor and click Ctrl+L to highlight all unconnected lines.
-	* For lines representing interactions between datanodes or between datanodes and other objects, connect any unconnected lines according to instructions in [[Help:Editing_Pathways#Adding_connectors_between_objects\|Help]].	+	# For lines representing interactions between datanodes or between datanodes and other objects, connect any unconnected lines according to instructions in [[Help:Editing_Pathways#Adding_connectors_between_objects\|Help]].
-	* Once the pathway contains no unconnected lines, or if the remaining unconnected lines are purely graphical, remove the [[Template:Curation:NoInteractions\|Unconnected lines tag]] from the pathway.	+	# Once the pathway contains no unconnected lines, or if the remaining unconnected lines are purely graphical, remove the [[Template:Curation:NoInteractions\|Unconnected lines tag]] from the pathway.

	==== Add literature reference ====		==== Add literature reference ====

Khanspers: /* Create groups and complexes */

2011-09-13T04:17:24Z

Create groups and complexes

←Older revision		Revision as of 04:17, 13 September 2011
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	# In edit mode, create complexes and groups by first selecting a set of items, then right-clicking to select either '''Group''' or '''Create complex'''.		# In edit mode, create complexes and groups by first selecting a set of items, then right-clicking to select either '''Group''' or '''Create complex'''.
	# You can identify existing complexes by a beige bounding box and dashed outline. Existing groups can only be seen by hovering over the bounding box of the group, which then appears light blue with a dashed outline.		# You can identify existing complexes by a beige bounding box and dashed outline. Existing groups can only be seen by hovering over the bounding box of the group, which then appears light blue with a dashed outline.
-	# Update any connections to the group or complex by	+	# Update any connections involving members of the group or complex by connecting them to the group or complex instead, where appropriate. See details in [[Help:Editing_Pathways#Adding_connectors_between_objects\|Help]].
	In general, the complex type should be used for any grouping of objects representing a functional group. The group type should be used to represent groups of similar objects, that are not complexed into a functional unit.		In general, the complex type should be used for any grouping of objects representing a functional group. The group type should be used to represent groups of similar objects, that are not complexed into a functional unit.

Khanspers: /* Create groups and complexes */

2011-09-13T04:12:05Z

Create groups and complexes

←Older revision		Revision as of 04:12, 13 September 2011
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	# In edit mode, create complexes and groups by first selecting a set of items, then right-clicking to select either '''Group''' or '''Create complex'''.		# In edit mode, create complexes and groups by first selecting a set of items, then right-clicking to select either '''Group''' or '''Create complex'''.
	# You can identify existing complexes by a beige bounding box and dashed outline. Existing groups can only be seen by hovering over the bounding box of the group, which then appears light blue with a dashed outline.		# You can identify existing complexes by a beige bounding box and dashed outline. Existing groups can only be seen by hovering over the bounding box of the group, which then appears light blue with a dashed outline.
		+	# Update any connections to the group or complex by
	In general, the complex type should be used for any grouping of objects representing a functional group. The group type should be used to represent groups of similar objects, that are not complexed into a functional unit.		In general, the complex type should be used for any grouping of objects representing a functional group. The group type should be used to represent groups of similar objects, that are not complexed into a functional unit.

←Older revision		Revision as of 04:20, 13 September 2011
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	The purpose of this task is to add relevant ontology terms to pathways, which serves as a way of organizing WikiPathways content. WikiPathways can be tagged with ontology terms from pathway, disease and cell type ontologies.		The purpose of this task is to add relevant ontology terms to pathways, which serves as a way of organizing WikiPathways content. WikiPathways can be tagged with ontology terms from pathway, disease and cell type ontologies.
	# Review the contents of the pathway, pathway description and bibliography to get an idea of what ontology tags are relevant.		# Review the contents of the pathway, pathway description and bibliography to get an idea of what ontology tags are relevant.
-	# In the Ontology Tags section of the pathway page, find tags either by searching or by browsing the available ontologies.	+	# In the '''Ontology Tags''' section of the pathway page, find tags either by searching or by browsing the available ontologies.
	# After selecting a term, add it to the pathway by clicking the '''Add''' check mark.		# After selecting a term, add it to the pathway by clicking the '''Add''' check mark.

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	Below are instructions and examples for how to cite specific sources:		Below are instructions and examples for how to cite specific sources:

-	~~======~~ Wikipedia ~~======~~	+	'''Wikipedia'''
	* Cite Wikipedia in the Description section, and include a link to the relevant page at Wikipedia.		* Cite Wikipedia in the Description section, and include a link to the relevant page at Wikipedia.
	* [[Pathway:WP111\|Wikipedia example]]		* [[Pathway:WP111\|Wikipedia example]]

-	~~======~~ PharmGKB ~~======~~	+	'''PharmGKB'''
	* Cite PharmGKB in the Description section, and include a link to the relevant pathway page at PharmGKB.		* Cite PharmGKB in the Description section, and include a link to the relevant pathway page at PharmGKB.
	* If the pathway page at PharmGKB indicates that the pathway has been published in the Pharmacogenetics and Genomics journal, review the publication to see if the text used as a description appears in the publication. If so, add the citation to the Bibliography.		* If the pathway page at PharmGKB indicates that the pathway has been published in the Pharmacogenetics and Genomics journal, review the publication to see if the text used as a description appears in the publication. If so, add the citation to the Bibliography.
	* [[Pathway:WP554\|PharmGKB example]]		* [[Pathway:WP554\|PharmGKB example]]

-	~~======~~ Reactome ~~======~~	+	'''Reactome'''
	* Cite Reactome in the Description section, and include a link to the relevant pathway page at Reactome.		* Cite Reactome in the Description section, and include a link to the relevant pathway page at Reactome.
	* [[Pathway:WP466\|Reactome example]]		* [[Pathway:WP466\|Reactome example]]

-	~~======~~ KEGG ~~======~~	+	'''KEGG'''
	* Cite KEGG in the Description section, and include a link to the relevant pathway page at KEGG.		* Cite KEGG in the Description section, and include a link to the relevant pathway page at KEGG.
	* [[Pathway:WP558\|KEGG example]]		* [[Pathway:WP558\|KEGG example]]

-	~~======~~ Scientific literature ~~======~~	+	'''Scientific literature'''
	* Cite the original publication in the Description section, and if available include a link to open access publications.		* Cite the original publication in the Description section, and if available include a link to open access publications.
	* Add the citation to the Bibliography		* Add the citation to the Bibliography
	* [[Pathway:WP339\|Literature example]]		* [[Pathway:WP339\|Literature example]]