Help:Frequently Asked Questions
From WikiPathways
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* How is WikiPathways different from KEGG, Reactome, BioCarta, Pathway Commons and other online pathway resources? | * How is WikiPathways different from KEGG, Reactome, BioCarta, Pathway Commons and other online pathway resources? | ||
::In addition to viewing and distributing pathways, WikiPathways content is also fully editable directly on the website. This is possible since WikiPathways is based on a wiki platform, similar to Wikipedia. | ::In addition to viewing and distributing pathways, WikiPathways content is also fully editable directly on the website. This is possible since WikiPathways is based on a wiki platform, similar to Wikipedia. | ||
| + | * What is GPML? | ||
| + | :: GPML is the file format used to store pathway content at WikiPathways. GPML is short for GenMAPP Pathway Markup Language and it is a custom XML format compatible with pathway visualization and analysis tools such as Cytoscape, GenMAPP and PathVisio. | ||
<h4>Using WikiPathways</h4> | <h4>Using WikiPathways</h4> | ||
* I created a pathway and made a mistake in it, how can I correct it? | * I created a pathway and made a mistake in it, how can I correct it? | ||
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::In the editor, click the '' Switch to full-screen mode'' button in the tool bar. This will open a separate editor window that can be resized to fit the whole pathway. | ::In the editor, click the '' Switch to full-screen mode'' button in the tool bar. This will open a separate editor window that can be resized to fit the whole pathway. | ||
When you are experiencing other problems with viewing or editing a pathway, please visit [[Help:Known problems|'''known problems''']]. | When you are experiencing other problems with viewing or editing a pathway, please visit [[Help:Known problems|'''known problems''']]. | ||
| + | * Where can I report bugs? | ||
| + | ::Please report any bugs you encounter and submit any general comments to our [http://groups.google.com/group/wikipathways-dev Google group]. You can also report bugs directly to our [http://ftp2.bigcat.unimaas.nl/~martijn.vaniersel/mantis/my_view_page.php bug tracker]. | ||
<p><font size=2>[[:Help:Contents|Return to Help Contents]]</font></p> | <p><font size=2>[[:Help:Contents|Return to Help Contents]]</font></p> | ||
Revision as of 22:11, 17 April 2008
Frequently Asked Questions
General
- Who, What and Why is WikiPathways?
- Do you check the content of contributed pathways to ensure that they are correct?
- No, WikiPathways does not review pathway content, except to look for vandalism and obvious problems.
- Where do all the pathways come from?
- At the start of WikiPathways, the pathway content mirrored that of GenMAPP.org, which was originally contributed by the GenMAPP user community.
- How is WikiPathways different from KEGG, Reactome, BioCarta, Pathway Commons and other online pathway resources?
- In addition to viewing and distributing pathways, WikiPathways content is also fully editable directly on the website. This is possible since WikiPathways is based on a wiki platform, similar to Wikipedia.
- What is GPML?
- GPML is the file format used to store pathway content at WikiPathways. GPML is short for GenMAPP Pathway Markup Language and it is a custom XML format compatible with pathway visualization and analysis tools such as Cytoscape, GenMAPP and PathVisio.
Using WikiPathways
- I created a pathway and made a mistake in it, how can I correct it?
- You can revert the changes to your pathways under the History section of the Pathway page.
- I want to delete a pathway, but there is no option for deleting.
- Deleting a pathway is only possible with an Administrator account, contact the Help Desk for help.
- How can I download all pathways at WikiPathways?
- Batch download of pathways in gpml and svg format is available here: Batch Download
- I want to use one of the pathways in GenMAPP, but since I am not on a PC, the download MAPP option doesn't work. How can I get a pathway in GenMAPP format?
- On the Pathway Page, click the Edit pathway link. When the pathway opens in PathVisio, go to File>Export to save the pathway in .mapp format.
- It's difficult to view large pathways in the editor window. Is there a way to increase the size of the editor window?
- In the editor, click the Switch to full-screen mode button in the tool bar. This will open a separate editor window that can be resized to fit the whole pathway.
When you are experiencing other problems with viewing or editing a pathway, please visit known problems.
- Where can I report bugs?
- Please report any bugs you encounter and submit any general comments to our Google group. You can also report bugs directly to our bug tracker.
