Jody Phelan

I followed a few github issues and found my way here, hope you don't mind! Just thought I'd mention that not all the dependencies are actually used at run time....

> A GitHub release is ideal since it often includes some version number v.X.X.X (and usually release notes/a changelog), but a git commit works just fine too Ok thanks, let...

Some variants could not be translated as there were some issues the reference and alternate not agreeing with the rest of the variant description. In this case it should be...

Oh right - I hadn't seen that they had added this hgvs notation now. I will take a look and see if I can include more of these cases.

Hi @frogtraveler , Indeed it looks like 1. fabG1 c.-16A>G it missing for ETH 2. rrl c.-255C>T should be listed as n.-255C>T I'll get a new version of the db...

Hi @frogtraveler, I've regenerated the mutation lists based on the hgvs annotations from the WHO list now. The mutations you highlighted are now in: * fabG1 c.-16A>G: https://github.com/jodyphelan/tbdb/blob/1656b7fe64c5543d55cf52b55de67b2344e9564f/tbdb.csv#L171 * rrl...

Hi @pmenzel, Thanks for letting me know about this, it does indeed look like this information is not included in the latest version. I'm hoping to release a new version...

Thanks for letting me know. For the purpose of reporting would you rather have family reported from both methods (SNP scheme and spoligotype)? or just from the actual insilico spoligotyping?

Ok, what I'll do is to add it back into the report in the next version.

Just letting you know that with v4.3.0, the spoligotype information has now been added back into the lineage report. Additionally with the spoligotyping function added, it will perform spoligotyping and...