Hightlight genes/metabolites in Pathview and ReactomePA
1
0
Entering edit mode
@emisecherre-23089
Last seen 4.2 years ago

Hello ! I would like to use Pathview and ReactomePA to visualize my pathways. I have a list of genes and metabolites of interest, and i would like to know how to highlight them (different color for exemple) in the pathway maps returned by these packages ? Thanks for your answer

pathview ReactomePA • 1.5k views
ADD COMMENT
0
Entering edit mode
@james-w-macdonald-5106
Last seen 7 hours ago
United States

There are vignettes for pathview and ReactomePA that show how to do that. Is there something in particular that you don't understand?

ADD COMMENT
0
Entering edit mode

For ReactomePA, i don't get if theres an other way to color nodes than using p-values as i want to color genes and metabolites from my lists. And for pathview, i see its described on the section "8.1 Compound and gene data", but i really don't understand which parameters i have to change to color specific elements...

ADD REPLY

Login before adding your answer.

Traffic: 468 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6