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joiningdata / lollipops

Lollipop-style mutation diagrams for annotating genetic variations.
GNU General Public License v3.0
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Cannot show Sars Cov 2 protein S #50

Closed dridk closed 3 years ago

dridk commented 3 years ago

Hi,

I try to show protein S , but I didn't success !

https://www.ncbi.nlm.nih.gov/gene/43740568

pbnjay commented 3 years ago

Please share the command you used and what the error message was.

dridk commented 3 years ago

/lollipops -Q P_ENTREZGENEID ENSSASG00005000004

pbnjay commented 3 years ago

So there's a couple things going on, first that's an Ensembl Identifier so the invocation would actually be: lollipops -Q ENSEMBL_ID ENSSASG00005000004

Second, there seems to be some issues linking the identifier to Pfam domains. The UniprotKB accession is P0DTC2 but there are no Pfam protein entries for it: http://pfam.xfam.org/protein/P0DTC2

Until it's annotated by Pfam we can't do much easily since we don't know the domain layout. In the meantime, if you know the structure you can edit an existing example (e.g. for http://pfam.xfam.org/protein/U5LNM4 you can save the domain architecture found at http://pfam.xfam.org/protein/U5LNM4/graphic to a local file). After you make your changes you can use -l=yourfile.json to draw the figure.

Hope that helps!