I have GWAS data with many associated loci. I'm looking for a way of listing all of the closest genes (and their positions) without clicking through in a genome browser for every locus.
I wish to provide an input of the genome annotations (in .gff3 or another format) and a list of every associated loci (Chr and base position) and get an output of several of the closest genes and their start and stop positions.
I assume there's already some off-the-shelf package I can use for this, or at least some code.
Thanks for the help!