What’s the Answer? (network analysis, plants)

This week’s question comes up on a pretty regular basis, but I always like to see what people are using for exploring the networks of their genes of interest. This was a new species, though, and I was curious to see if there was something particularly relevant to this plant.

Biostars is a site for asking, answering and discussing bioinformatics questions and issues. We are members of the Biostars_logo community and find it very useful. Often questions and answers arise at Biostars that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those items or discussions here in this thread. You can ask questions in this thread, or you can always join in at Biostars.

Question: Network analysis software

I have RNA-seq data for a plant species (Sorghum) that its genome is already mapped, any suggestion for doing network analysis? I prefer to do it without using R packages.



If you have any other ideas, though, it would be nice to see some suggestions from the plant science side. Go comment over there.