I have 66 prophage genomes and have generated a coordinates file using NUCmer/MUMmer. I'm aiming to visualize these data in a Circos plot but am encountering difficulties.
Has anyone had experience creating Circos plots from NUCmer/MUMmer output? I would greatly appreciate any guidance or assistance in setting up the Circos configuration files and generating the plot.
Any tips or resources would be incredibly helpful.
Thanks in advance!
I want to crate a circular map showing the similarly of my 66 genomes. You can get an idea how this type of graph look like from here:https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-020-6765-z/figures/3
The visualization you mentioned is indeed possible. And as you mentioned you are facing difficulties. This is a practical problem and trouble shooting require more like a hand on access to data and error to come up with solutions.
I can recommend to start with few genomes and if successful, add more. Or try http://shinycircos.ncpgr.cn/
- Badges
- Science topic
- Similar topics
- Biological Science
- Molecular Cell Biology
- Culture Cells
- Cell Line