HI Tulasi,
Apologies for the delayed response. I looked into the paper, and it seems like a great feature. However, this feature has not been implemented in the public cBioPortal portal, so we can't share any such examples with you (concerning the dimensionality-reduction plots). You can contact the authors and check if they implemented this plug-in on their local cBioPortal installation and get more information from them.
Regarding the pathway feature, cBioPortal uses PathwayMapper, as shown in this
example. This feature already exists in cBioPortal but doesn't use the open-source tool from the paper.
We are working on adding more single-cell data into cBioPortal, which includes allowing users to visualize their dimensionality reduction plots. We allow users to do this using either cellxgene or VITESSCE - like in this
example. I'd be happy to answer more questions about this.
I hope this answers your question.
Regards,
Jessica