Closed melissacline closed 4 years ago
@melissacline could you provide a wireframe or if it's as simple as adding a couple rows, a description of where you would like the data displayed in the UI?
You bet. One wireframe coming up!
Here is a quick wireframe. @zfisch Let me know if you need anything else.
@melissacline need a couple things to wrap this up:
Segregation_LR_exLOVD Log ratio describing the likelihood of variant pathogenicity, given co-segregation data 0.00001
(I could probably guess what would go here but better to confirm)@zfisch, here are some wrap-up things for you.
Thanks!
@melissacline I actually need the text for Pathology LR and Case-Control LR -- we already have co-occurrence, segregation, and summary family history text (unless you want those updated!)
The new fields in the output are called:
Segregation_LR_exLOVD Pathology_LR_exLOVD
Reminder that we translate exLOVD to ExUV in the ui.
Changes can be made on the addExUVLRFields branch or can be done in their own PR afterwards if you'd like.
Okay, I see. The existing help text is fine. Here's help text for the new fields:: Pathology_LR: This value is the likelihood ratio estimated from tumor pathology data from cancer patients who carry the variant. From ExUV Case-Control LR: This value is the likelihood ratio estimated from analysis of matched case (diagnosed with cancer) and control (unaffected by cancer) patients. From ExUV.
To doublecheck, the new fields are called Pathology_LR_exLOVD and what?
eep! good catch, thanks!
Case_control_LR_exLOVD Pathology_LR_exLOVD
Great - I've got a pull request up for you!
This is a request from Michael Parsons. The exLOVD data (a.k.a. the BRCA ex-UV data) has two additional fields that would be valuable for us to pull in: the Case-Control LR and the Pathology LR. See this entry, which corresponds to this variant on BRCA Exchange.
The Pathology LR and Case-Control LR have probably been part of the exLOVD data forever, but we didn't realize that there was good information that we weren't pulling in yet. Hopefully, this is "just" a minor change to that web-scraping script (yeah, I know...).