Generate CIRCOS plot

[sr320]

of gene expression, methylation, etc - maybe 1 chromosome...

[kubu4]

Just a status update.

Finally getting back into the swing of things with this stuff. Here's a quick and "easy" plot of a single chromosome showing mean gene FPKM between control females (black inner ring) and exposed females (green inner ring).

Will get some methylation stuff going, as well as transcript counts or something. It's very easy to plot all of this across all chromosomes, but for testing/starting out working on just a single chromosome helps make the process a tad easier.

[kubu4]

Here's an updated plot of single chormosome (colors describe interior rings):

I'll work on getting transcript counts plotted as well.

• GREEN = mean fpkm CONTROLS FEMALES
• BLACK = mean fpkm EXPOSED FEMALES
• BLUE = mean methylation CONTROLS FEMALES
• RED (ORANGE) = mean methylation EXPOSED FEMALES

[kubu4]

@yaaminiv Here's an overly complicated plot all of the data I've managed to get into Circos histogram format. Not sure if you just want to throw it into your talk as a pretty picture/example of how we're starting to visualize data?

Description: Comparison of female C.virginica gonad data, per gene on chromosome NC_035781.1. Control samples are always the lighter, outer plots and OA-exposed are the darker, inner plots.

PURPLE: Mean gene expression (FPKM)

RED: Mean percent methylated.

BLUE: Number of transcripts.

Link to files (PNG and SVG formats): https://github.com/sr320/ceabigr/tree/main/output/figures/circos

Note: If you want to use these, please download them. These should be considered "temporary".