How to illustrate positions (start and stop) of the genes in graphical view

Question

[Kumar]

Hi, I need to arrange the regions (start and stop) of some genes (e.g. aph, aph-3, blaCMY etc.) located at different genome nodes so I am trying to arrange these data in the following manner. Now I am looking to illustrate these positions of the genes in a graphical view. Please let me know if there is any software or script that I can illustrate the results with. I was trying to follow Biopython but I could not figure out how to arrange. I have a total of 60 samples that need to be illustrated. Any suggestion would be highly appreciated.

    Samples genome_nodes1 aph aph-3 blaCMY flo sul tet genome_nodes2 blaTEM aph-3lb ISc9  ISVa3
    Sm_010 18 8800-9636 9636-10439 39656-40801 4451-5664 10500-11315 6265-75391 26 NA NA 37884-39539 2356-3332
    Sm_012 18 8799-9635 9635-10438 37836-38981 4450-5663 10499-11314 6264-7538 26 74-897 NA NA 2355-3331
    Sm_037 17 8799-9635 9635-10438 39655-40800  4450-5663 10499-11314 6264-7538 26 3378-4201 NA 37883-39538 2355-3331

Answer 1

[Wayne]

Seen these?

• DNA Features Viewer, for associated paper see DNA Features Viewer, a sequence annotation formatting and plotting library for Python
• gene annotation that is part of gos: genomic visualization in python.
• Gene tracks of pyGenomeTracks

[Kumar]

Many thanks for your help. I think DNA Features Viewer could be a useful tool for now.