Add v12 cranio subtyping (4/N) #325
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zzgeng
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Mar 1, 2023
analyses/molecular-subtyping-CRANIO/00-craniopharyngiomas-molecular-subtype.Rmd
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sangeetashukla
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Mar 1, 2023
analyses/molecular-subtyping-CRANIO/00-craniopharyngiomas-molecular-subtype.Rmd
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@zzgeng @sangeetashukla ready for re-review! |
sangeetashukla
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Mar 2, 2023
zzgeng
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Mar 2, 2023
v12 CI subset files (16/N)
V12 neurocytoma (8/N)
V12 chordoma (5/N)
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Purpose/implementation Section
What scientific question is your analysis addressing?
This PR adds v12 craniopharyngioma subtyping.
What was your approach?
Adds v12 cranio subtyping. Used DNA variants to determine ADAM or PAP types and if NA or To be classified, used high confidence methylation.
What GitHub issue does your pull request address?
v12 release
Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.
Which areas should receive a particularly close look?
script logic
Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?
yes
Results
What types of results are included (e.g., table, figure)?
molecular subtype table
What is your summary of the results?
302 samples: 213 CRANIO, ADAM and 89 To be classified
102 tumors
Reproducibility Checklist
Documentation Checklist
READMEand it is up to date.analyses/README.mdand the entry is up to date.