I currently have a certain list of SNPs (chromosome and position). I need to check whether these SNPs fall into another list of gene regions (chr:start_position-end_position) that I have.
I was previously able to find overlaps between positions using findOverlaps in R and I also saw we can do something similar using bedtools intersect. But it seems like those tools are all for finding chr:start-end overlaps, whereas I want to see whether my SNP positions fall into my gene regions of interest.
Any suggestions would be greatly appreciated.