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FINNGEN / pheweb

A tool to build multi-phenotype GWAS browsers
MIT License
6 stars 2 forks source link

finemap and coloc and ukbb/phewas catalog missing for xhrx #282

Closed Fedja closed 1 year ago

Fedja commented 2 years ago

All locuszoom plots empty..... coloc table shows but does not show anything in locuszoom plot when clicking on coloc...https://r10.finngen.fi/region/T2D/23:153434467-153834467

majorseitan commented 1 year ago

Clinvar and GWAS + UKBB needed to map 23 to chromosome X

majorseitan commented 1 year ago

https://results.finngen.fi/region/I9_HYPTENS/23:153368702-153768702

now working as expected on bstaging

https://bstaging.finngen.fi/region/I9_HYPTENS/23:153368702-153768702

majorseitan commented 1 year ago

https://r10.finngen.fi/region/J10_COPD/23:1822197-4822197

this now works as expected on bstaging

https://bstaging.finngen.fi/region/J10_COPD/23:1822197-4822197

majorseitan commented 1 year ago

x chromosome needed to be replaced with 23 in finemapping and conditional results returned.

Colocalization works as expected as seen here.

https://bstaging.finngen.fi/region/T2D/23:153368702-153768702

The buttons were hidden by the lavaa plot css and where fixed in an earlier commit.