Circos Plot for synteny relationship
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
• 2,577 views
•
link
written
by
tothepoint
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Circos
written by Ahashan •
-
How to plot figure?
written by tothepoint
-
Rename sample id in vcf header
written by tothepoint
-
Circos Plot for synteny file
written by tothepoint
-
Circos Karyotype file preparation
written by tothepoint
-
How to make circos plot in R for miRNA and target genes retrieved from targetscan?
written by Björn •
-
BRIG: How to use a multi fasta file as query
written by benoit.kunath •
-
Circos histogram from SNP.VCf file
written by Bioinfonext
-
FASTA file to Karyotype file
written by The Last Word
-
Circos input format
written by cdwilliam524 •
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/
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?