tool to get surrounding sequence given HGVS
I am exploring my options for a tool to retrieve the sequence surrounding HGVS variants.
I would prefer an R library, but I'm interested in other languages or web-based too.
It looks like the 'hgvs' bio commons Python library can do this? Is that right? Are there other libraries or applications?
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I looked into cellbaseR, but it doesn't seem to do what I need, at least not easily.
Also, I have gene-name-based variants as input. So, I need to handle that either directly or indirectly.