Hello,
A few days ago I asked some questions regarding how to find associated genomic data easily.
GenoMax recommended efetch and esearch, as can be seen here: Extract nucleotide sequence from a RefSeq Transcript ID
Since this time I have been using these tools; for some reason, though, I am hitting a snag when pulling genetic variants within a given gene ... I have a couple working versions; for instance, e
esearch -db snp -query "FGFR2" | efetch -format docsum
gives me approximately the right information, but no rsIDs are provided. Other queries also get me close, but for instance without variant annotation information (i.e. this results in a missense).
is there a simple way to emend the above query so it gives me rsID, chr, pos, functional info, and (ideally) more?
TYVM