CommunityCurationProtocol
From WikiPathways
During the week of May 19-23, we are going to review all pathways on WikiPathways to make them more robust and amenable to computational analysis. The main improvements we want to make are:
- Provide a proper graph representation by connecting all lines and arrows that represent interactions
- Group complexes and other elements that act together
- Check the annotation of gene products and metabolites
Join us in this Community Curation effort! Sign-up for particular pathways you would like to review and refer to the protocol below. See the discussion mailing list for more details about this event.
Protocol
The following steps could help in reviewing and improving a pathway.
- Identify stacked datanodes and group them (CTRL-G)
TODO: Example
- Find labels that span multiple lines. If multiple labels are used to represent a single block of text, convert them to a single multi-line label
TODO: Example
- Check for labels that represent a gene-product or metabolite and convert them to a properly annotated DataNode
| Before | After |
|---|---|
| 
|
- Replace multiple line segments with a single connector
TODO: Example
- Replace arc/arrowhead combinations with curved connectors
TODO: Example
- Link lines between elements. You can press CTRL-R to reveal all unlinked line ends.
TODO: Example
- ...
Problems
Please use the talk page to discuss general problems (e.g. how to graphically represent something). For pathway specific problems, please use the talk page of the pathway (by pressing the 'discussion' tab on the pathway page).
If you find any bugs in the software, please report them to our bug tracker.
