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AlexsLemonade / OpenPBTA-analysis

The analysis repository for the Open Pediatric Brain Tumor Atlas Project
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Zenodo CSVs: S2H-I and S6A-D #1710

Closed sjspielman closed 1 year ago

sjspielman commented 1 year ago

The march to #1692 continues

S2H-I: figures/scripts/figS2-tmb-compare-panels.R

Figure S2

These two panels are the only S2 panels where I do not need to be on AWS (those are forthcoming probably next week and are in adifferent script). Tried to prune down here to relevant variables without getting too aggressive.

S6A-D: figures/scripts/figS6-subtype-umap-panels.R

Figure S6

This wraps up S6 exports! I did some purrr and felt cute. I did a double take at first since all cancer groups are present in all UMAPs, which felt like it should be wrong, but upon re-looking at the figure it is actually correct.

Also If we're concerned with the wild commit/merging history from the stacking extravaganza, I can plop this into a new branch as well. Due to squashing I think it's ok though.

sjspielman commented 1 year ago

Code does not run through CI; merging before checks.