Feature request KEGG pathway maps

[micwij]

Hi,

Thank you for this useful package. I was wondering, whether there are plans to also include KEGG pathway maps in SGBNview. I know that those are covered by Pathview but with SGBNview it looks like the output is easier to customize (e.g. output in .svg). I know there are ways to theoretically do this myself with KEGGtranslator (http://www.cogsys.cs.uni-tuebingen.de/software/KEGGtranslator/) or Vanted (https://www.cls.uni-konstanz.de/software/vanted/) and SGBN-ED (https://kim25.wwwdns.kim.uni-konstanz.de/vanted/addons/sbgn-ed/). I will see if I can manage to do this but I think generally, other users may benefit from the addition of KEGG pathways to SGBNview. For example I work with data from tomato (Solanum Lycopersicum) and the only database I could query for plant-specific pathways with SGBNview is MetaCyc, which did not annotate many of my genes properly. This may be similar for other users working with non-human/non-mammalian/non-model species.

I have another question. Is there a way to adjust bins and limits of the scale as there is in pathview? I did not find this in the documentation.

Thanks a lot for your help and consideration!
Best,
Micha

[raw937]

That will be included in a future update.

Are you still having this issue? Let me know?

This project is no longer under development here.
Please check the new fork here.
https://github.com/Kannapolis-Bioinformatics/SBGNview

If you have the same issues place in https://github.com/Kannapolis-Bioinformatics/SBGNview/issues.

many thanks,
Rick