Question: Difference between genomes in circular graph
0
gravatar for bio_student
16 months ago by
bio_student0 wrote:

Hi guys,

I have 10 genomes and I need to visualise them in circular graph and I want to show difference between these genomes. For example if there are two mutations in one gene I would like to have a coloured sign in this place. Can you tell me which software should I use or how to do it?

ADD COMMENTlink modified 14 months ago by Alex Reynolds27k • written 16 months ago by bio_student0
1

I need to visualise them in circular graph

circos http://circos.ca/

ADD REPLYlink written 16 months ago by Pierre Lindenbaum117k

Take care though...Doing all 10 in one circle may be a bit unreadable, hard to interpret.

ADD REPLYlink written 16 months ago by theobroma221.1k

You can use CIRCOS, one of the popular visualization tool, written in PERL as suggested by Pierre. There is one more R package which can help you ie.CIRCUS.

ADD REPLYlink modified 16 months ago • written 16 months ago by Samarth Kulshrestha170
0
gravatar for jrj.healey
16 months ago by
jrj.healey11k
United Kingdom
jrj.healey11k wrote:

I would strongly suggest using BRIG (Blast Ring Image Generator) instead of Circos. It gives slightly more granular images in my opinion, with much less messing about.

ADD COMMENTlink written 16 months ago by jrj.healey11k
0
gravatar for Selenocysteine
16 months ago by
Dublin, Ireland
Selenocysteine550 wrote:

You can use this tool which is based on CIRCOS, but easier to use if you are not very proficient with coding stuff: http://omgenomics.com/circa/

ADD COMMENTlink written 16 months ago by Selenocysteine550

It is not free though.

ADD REPLYlink written 14 months ago by Medhat8.2k
0
gravatar for Alex Reynolds
14 months ago by
Alex Reynolds27k
Seattle, WA USA
Alex Reynolds27k wrote:

You might consider investigating if a hive plot would give you a less convoluted figure.

ADD COMMENTlink written 14 months ago by Alex Reynolds27k
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