Hi All,

I have been analysing some rat data with the default rn5 package and am now trying to upgrade to a more recent reference genome.

I am following the instructions on this page https://rnbeads.org/data/RnBeadsAnnotationCreator.pdf

I have two main questions regarding this.

My main issue is that the most recent dbSNP data for rats is in a different ftp site, rather than the ncbi url in the documentation they are in an ebi server. how would I best access these to suit RnBeads. Here is the location : https://ftp.ebi.ac.uk/pub/databases/eva/rs_releases/release_3/by_species/rattus_norvegicus/mRatBN7.2/

Secondly When selecting chromosomes where can I find the annotation used in a specific reference assembly for a bioconductor package such as rn7? The rat genome has 1:20, X ,Y ; so would it be:

CHROMOSOMES -> c(1:20, X, Y)?