Circos Plot for synteny relationship
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16 months ago
devarora ▴ 430

I have a denovo assembled fasta file and reference genome fasta of the same. How can I make circos plot to understand the synteny. I tried circos tutorial and they work well on their karyotype file and I am struggling in making the karyotype file. Any lead in this regards will be highly appreciated.

Thanks Devender

genome circos Assembly synteny_plot • 759 views
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you can try SyMAP (less complicated than circos) which is used for the similar purpose - It can align a draft genome to a fully sequenced genome. For more details check: http://www.agcol.arizona.edu/software/symap/

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I tried symap but it come-up with error again and again. No result in the end. Now I am giving a try to mysyntenyportal. Is there any other user friendly tool?

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