circle plot

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circle plot

Post by 111602 » Thu Jun 03, 2010 11:37 am

Hi, anyone know how to draw the circle plot as follow? it showed the conservations between different sequences .
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Last edited by 111602 on Fri Jun 04, 2010 7:44 am, edited 3 times in total.

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JackBean
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Post by JackBean » Thu Jun 03, 2010 12:06 pm

I would use Cytoscape for such an graph, but I'm not sure, what should it say? The lines are your sequences? Why not to use only simple alignment?
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.

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Post by 111602 » Fri Jun 04, 2010 1:08 am

I uploaded another figure that show the conservations between different chromosomes.my would draw a figure like that .but I DONT KNOW which software can do it/

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Re: circle plot

Post by JackBean » Fri Jun 04, 2010 7:11 am

yeah, I understand the graph with chromosomes. That's something like here
Image

but I don't understand the picture with genes

as I said, I would use Cytoscape
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.

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Post by 111602 » Fri Jun 04, 2010 7:40 am

I know your showed figure is drawed by Circos. but I think it cant show the three or more duplicated segment
between two sequecse, just like my pointed in the new uploaded figure

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Post by JackBean » Fri Jun 04, 2010 8:00 am

try the Cytoscape
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.

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Post by lovetube » Wed Jul 13, 2011 12:49 pm

Can anybody explain me the picture with genes?

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