“Before Circa, it took me a week to make a circos plot”
That’s a quote from one of our customers, and they are not alone. This is something we hear a lot.
Of course it takes time to find the right bioinformatics tools for your analysis and interpret the results correctly, but seriously, why should it take you several days to create a circos plot?
You’ve seen circos plots in papers before and you know they are a great way to show genome-wide data like variants, copy number profiles, and epigenetic data across all chromosomes at once. A great circos plot in figure 1 can give a wonderful visual overview of your work before diving deeper in the rest of the paper. So you set out to make a circos plot.
This is taking forever
Maybe you have even made a circos plot yourself in the past by writing a complex config file for Circos itself or used one of the R libraries that are supposed to make it easier, but it is still surprisingly frustrating and time-consuming.
You’re willing to research for many hours to find the best way to do your science right, but to just visualize the results, that really shouldn’t take several days!
I struggled for over three days in graduate school to make my first circos plot, and I still wasn’t completely happy with it! That’s why I decided to build Circa. Now I can make that same circos plot in 60 seconds.
Got 1 minute? See what you can create with Circa
With Circa, you will build a circos plot from your own genomic data in less than an hour.
You probably had to do a fair amount of coding and complex data analysis to get your data to the point where you have results worth visualizing.
With Circa you can take a break from the command-line and create an entire beautiful circos plot without writing a single line of code (or configuration files!).
There are many ways to plot your data in Circa
See your changes immediately, no waiting to re-run a script
Save and share your Circa plots
You can share circa plots with other people. When you save a plot, it generates a .circa file that includes everything your collaborator needs to see and edit the plot in Circa on their own computer. Just like Word or Photoshop files, if your colleague also has Circa on her computer, she can edit your plot, add data to it, restyle it, and export new images.
Save your publication-quality plot
With Circa, you can save in PNG or SVG format. PNG is a normal image that you can easily use in drafts and presentations, while SVG is completely scalable and has infinite resolution. The SVG plot you get from Circa can also be edited in Adobe Illustrator or Inkscape, where you can also save it as a PDF.
Who is Circa not for?
Circa is very easy to use, but doing bioinformatics is always going to be a challenge, and not everyone is comfortable doing analysis and formatting their data themselves. I have received requests for help like “I have this FASTA file, now what?”, which I cannot help with, and I don’t want any of you who are in that boat to buy Circa and then be disappointed that I can’t help you do bioinformatics, format your data, or build the plot for you. So, if you fit into any of the following below, you are not ready to use Circa yet, and I encourage you to wait to purchase Circa until your data is completely ready for it.
Circa is not for you if:
- If you don’t know what your reference genome is and where your data points go on that reference genome
- If you haven’t figured out the bioinformatics analysis yet — Circa only does the plotting, not the analysis, so for example, FASTQ, FASTA, and BAM files need some work before they become data points you can plot.
- If you can’t make CSV or TSV files from your data — Circa needs these (or a VCF < 10 MB) where each line is a data point.
- If your data points don’t have chromosomes and basepair positions attached to them — Circa needs to know this about every data point so it can plot them onto the genome’s coordinates.
Please watch this tutorial to make sure your data is compatible with Circa:
If you are not satisfied with Circa, respond to your welcome email and tell me why you are disappointed to get a full refund.
Thanks to the authors who used and cited Circa in their papers!
The primary transcriptome, small RNAs, and regulation of antimicrobial resistance in Acinetobacter baumannii, BioRxiv. Beautiful Circa plot in Figure 1.
Integrated miRNA-mRNA spatial signature for oral squamous cell carcinoma: a prospective profiling study of Narrow Band Imaging guided resection, Nature Scientific Reports. Great use of multiple Circa track types in Figure 5.
High‐density genetic map using whole‐genome re‐sequencing for fine mapping and candidate gene discovery for disease resistance in peanut, Plant Biotechnology. 3 different Circa plots!
(Send me a link to your paper where you used Circa, and I’ll add it to this list)
Need to see more videos?
What do you get?
When you buy Circa, you will get immediate access to download Circa for Mac, Windows, and Linux operating systems. You will also get a Starter Pack of example input files to experiment with.
If you have any questions about Circa, check out the FAQ and tutorials. If you still have a burning question, you can email me at email@example.com.