What scientific question is your analysis addressing?
This PR fixes all of the HGG subtype discrepancies by going back to overhaul the TP53 score module to use a match_id and then rerunning TP53, HGG, pathology, and integrate. I also added multiple checks for duplicates within the TP53 annotation and HGG annotation modules.
What was your approach?
What GitHub issue does your pull request address?
Closes #477
Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.
Which areas should receive a particularly close look?
Is there anything that you want to discuss further?
Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?
Results
What types of results are included (e.g., table, figure)?
What is your summary of the results?
Reproducibility Checklist
[ ] The dependencies required to run the code in this pull request have been added to the project Dockerfile.
[ ] This analysis has been added to continuous integration.
Documentation Checklist
[ ] This analysis module has a README and it is up to date.
[ ] This analysis is recorded in the table in analyses/README.md and the entry is up to date.
[ ] The analytical code is documented and contains comments.
Purpose/implementation Section
What scientific question is your analysis addressing?
This PR fixes all of the HGG subtype discrepancies by going back to overhaul the TP53 score module to use a
match_idand then rerunning TP53, HGG, pathology, and integrate. I also added multiple checks for duplicates within the TP53 annotation and HGG annotation modules.What was your approach?
What GitHub issue does your pull request address?
Closes #477
Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.
Which areas should receive a particularly close look?
Is there anything that you want to discuss further?
Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?
Results
What types of results are included (e.g., table, figure)?
What is your summary of the results?
Reproducibility Checklist
Documentation Checklist
READMEand it is up to date.analyses/README.mdand the entry is up to date.