circular R plot

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3.5 years ago

evafinegan • 0

Hello,

I want to make a circular plot in R to show the genomic distribution of SNPs found in GWAS. I tried searching the tools and found many different packages like, R circos, Biocircos. I am not not which one is the best one for such a figure. I also tried to check the methods for research papers where I found such plots but I could not find such information in the papers. Thank you for any suggestion!

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ADD COMMENT • link updated 3.5 years ago by Ram 44k • written 3.5 years ago by evafinegan • 0

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I like circlize, it's got great documentation, and there's also a shiny app based on it (here) you can use to make the plots.

ADD REPLY • link 3.5 years ago by Papyrus ★ 3.0k

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Zuguang Gu's docs are always great. He's also a very responsive and responsible dev, I'd pick circlize over other tools as well.

ADD REPLY • link 3.5 years ago by Ram 44k

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Try creating plots using the packages you find and pick one that works for you. There is no "best", but as you explore these packages, you will find some that work best for your requirements. As those requirements evolve, you might find new packages that work better.

I followed a similar route while looking for heatmap packages. heatmap -> heatmap.2 -> ComplexHeatmap.

ADD REPLY • link 3.5 years ago by Ram 44k

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