Circos: how to draw ribbons?

Hello

Does anyone has experience with circos?

I want to draw a figure like this, but I am struggling to draw it. I have two bacterial genomes and they are represented in one circle (every half is one genome). I also have the coordinates of the regios that I want to connect with ribbons like in the figure. They were "calculated" using a different program. I can not find how to input these coordinates in circos. Does anyone already tried this?

Thanks in advance.

circos assembly

• 2,982 views • link

updated 9.3 years ago by theobroma22

• written 9.3 years ago by tmms •

Have you been working with circos previosly? If so, how your circos.conf file looks like? In general your link data file should have this structure:

genom1 region1_start region1_end genom2 region2_start region2_end

e.g.

hs1 100 200 hs2 250 300
hs1 400 550 hs3 500 750
hs2 600 700 hs3 1100 1125

and so on.

• 0 views • link

written 9.3 years ago by ahaswer

Thank you for the reply. I already figured out what I did wrong.

I used the wrong names for the links. They should have the same name as the chromosomes defined in the karyotype. I also did not make a seperate linkfile. As soon as I did that, I just had to add "<<include path="" to="" linkfile="" links.conf="">>" in conf-file. Afterwards everything worked perfectly.

• 0 views • link

written 9.3 years ago by tmms •

1 answer

You can use the RCircos.Ribbon.Plot() function in the RCircos package.

• 0 views • link

written 9.3 years ago by theobroma22