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Consider adding a simple table of overall cancer incidence and mortality that includes the "trend" from state cancer profiles data. Alternatively, just include a table with the "trend" for all cancers…
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Hi,
I've practiced the model training following the tutorial you provided.
The gdcCancer.bb file was downloaded from the link in the tutorial, and later was converted to bed file using bigBedToB…
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At a conference, @meredithshiels got feedback that the "Epi" prefix might not mean anything to a lot of users.
We should come up with another name. I think it should have the following properties:…
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Regardless of the area selected (United States or an individual state), selecting 'county' as the area type will always generate an error.
Example code:
```
cancerprof::incidence_cancer(
area …
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- [x] Explore cBioPortal
- [x] See what data is available
- [x] What is their license
- [x] How can we download the data
- [x] etc
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@JoeArmani can you please remove non-melanoma skin as a primary cancer site from the RCA data structure?
In an email chain with Brooke Thompson, Heather Feigelson, and Mia they decided that non-mel…
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Pull one patient from the prostate cancer data and perform QA/QC by manually mapping to KBs/reference DBs. Look for biomarkers, relevant pathways, etc. Reference the [KB figure](https://docs.google.co…
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A1BG_cross = ov.multi_join({"umich proteomics": "A1BG", "bcm transcriptomics": "A1BG"})
Trace
AttributeError Traceback (most recent call last)
Cell In[17], [line 1](vsc…
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Pull one patient from Synthea data (lung cancer, if available) and perform QA/QC by manually mapping to KBs/reference DBs. Look for biomarkers, relevant pathways, etc. Reference the [KB figure](https:…
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Currently splitting the data into train / test & validate accounts only for approximate final set sizes (i.e. 80/10/10) and if asked for, creates drug-blind (i.e. drug ids will be unique to either tra…