Question: Draw circular genome with selected features
0
gravatar for ThePresident
2.4 years ago by
ThePresident100
ThePresident100 wrote:

Hi guys,

What's the easiest to draw a circular map of a bacterial genome and highlight some specific genes or regions and put some coordinates/scale around?

Ex. Genome lenght is 2,500,000 bp and I want to draw it as a circle and highlight regions 1000-1500, XXX-YYY and so on.

Circos is too sophisticated for what I want to do and I have hard time understanding how I would do it with GRanges (still open to that idea if someone can point me the way).

Thanks,

TP

circular plots R • 1.5k views
ADD COMMENTlink modified 2.4 years ago by EagleEye6.2k • written 2.4 years ago by ThePresident100
3
gravatar for biokoala
2.4 years ago by
biokoala3.6k
biokoala3.6k wrote:

You can give a try to CiVi: User-friendly Circular Visualization for microbial genomes

http://civi.cmbi.ru.nl/

ADD COMMENTlink written 2.4 years ago by biokoala3.6k

This is exactly what I was looking for. Thanks!

ADD REPLYlink written 2.4 years ago by ThePresident100

you should accept an answer if that really helped

accept or upvote

ADD REPLYlink written 6 months ago by biokoala3.6k
1
gravatar for EagleEye
2.4 years ago by
EagleEye6.2k
Sweden
EagleEye6.2k wrote:

Homer simplified circos for us,

http://homer.salk.edu/homer/interactions/circos.html

ADD COMMENTlink modified 2.4 years ago • written 2.4 years ago by EagleEye6.2k

Nice resource, will give it a try also :)

ADD REPLYlink written 2.4 years ago by ThePresident100
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