Some pathways were significantly altered on my microarray data. I want to highlight these pathways and the related genes on a single pathway graph. I tried iPath and found there were some conflicts of edges when I tried to color up- and down-regulated genes in different colors. Therefore, I want to know if there are some other tools for highlighting pathways and genes simultaneously.
I disagree Giovanni. The question listed as a possible duplicate was about how to identify significantly altered pathways. This question is about how to visualize them once you have identified them. Although related, it is in my opinion not a duplicate question.
Exactly, please double check and read the question carefully again before closing anything.
ok, but please, when you open a new question, check that there are not others with a similar title, or it will confuse other users.
closed because it seems a duplicate of a previous question. Please check whether your question has already been asked before posting; if your question is different, please explain how what you are asking is different in the text of the question.