speed related issue

[ammawla]

I developed a package that integrates multi-omics to identify putative enhancer regions, and it utilizes the Gviz package to visualize these. However, loading several -omics layers on top of the annotated tracks is time consuming. It takes ~ 1-2 min, depending on CPU and memory availability on a laptop. I was hoping to find a way to speed up this process, and wanted to know whether or not Gviz can handle multithreading or work with other packages in R that are focused on parallel processing.

Package link here: https://github.com/Huising-Lab/epiRomics

Shiny app here: https://huisinglab.shinyapps.io/epiRomics/

I was able to get around the loading issue on Shiny by creating a permanent cache on AWS S3, but these only exist for indices already run. For those that haven't, it takes 2 minutes and may drive users away.

Please let me know if you have any suggestions or thoughts. Thank you!