Annotation of pdb

[robinweide]

Hi all,

Firstly for the devs: awesome work! Very impressed by both the code and docs.

I have made some nice looking structures (PM1@150000bp bins), which I would love to annotate -using BED-files- with AB-status, genes etc.

Since I'm very new with this and especially the pdb format, I need some help with this. Could you give me some hints how to assign a color (or element-type) to individual atoms of the pdb?

Thank you, Robin

[NelleV]

Hi robinweide,

Sorry for the very late reply. I seem to have problems with github emails.

Unfortunately, there is no easy way of doing this. I think you will have to build your own scripts to do the visualization, and map which portions of the genomes corresponds to your bed file.
I usually use mayavi for visualization, which allows to provide a color for each element plotted, but finding the mapping between beads and colors is the tricky part.

Thanks,
N