Reece Hart

Hi @akeeeshi - I'd be thrilled to have someone address this. A PR (with tests) would be extremely appreciated. The core of the issue is that hgvs assumes that transcripts...

Happy to help! Thanks for give this a shot. Did you find/confirm the underlying cause? Do you have test cases? Please see tests/issues/test_* files for examples and put your tests...

Hi @kyuhas. I would prefer to understand the root cause and solve that once rather than expect all callers to wrap. I look forward to seeing your assessment of what's...

Hi @sachalau : Your request was very clear. Thank you for raising this issue so thoughtfully! You've analyzed the problem well. These are the barriers: * Implicit assumption of genome⇔transcript⇒protein....

Hi @sachalau: Please try pulling UTA again. @andreasprlic and I have been loading new data and came across similar issues. We're using Python 3.7 and *I think* HEAD should now...

biocommons/bioutils#16 was implemented. Testing hgvs using that package works. Immediate problem fixed. Closing now, but expect to pick up pyvcr work in other testing overhauls and after obsoleting 2.7 support.

Accidentally closed through typo on commit message. :-(

hgvs 1.0.0rc1: ``` In [1]: var_g = hp.parse_hgvs_variant("NC_000001.10:g.26139280T>G") In [2]: var_c = am37.g_to_c(var_g, "NM_020451.2") /usr/local/share/seqrepo/master/sequences/2016/0824/050233/1472014953.2945154.fa.bgz In [3]: var_p = am37.c_to_p(var_c) In [4]: var_c Out[4]: SequenceVariant(ac=NM_020451.2, type=c, posedit=1384T>G) In [5]: var_p...

Indeed, NP_065184.2 has a U at p.462.

Here's the best of the packages that I've collected while wandering around the jsonschema and openapi landscape: * connexion * python-jsonschema-objects * fastapi -- uses python classes and typing to...