categorical mutational signatures - Githubissues

cBioPortal / icebox

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categorical mutational signatures #295

Open jjgao opened 4 years ago

jjgao commented 4 years ago

The current mutational signature implementation uses continuous data. It would be very useful if we can turn the data into binary calls (present or not or NA). We can then select samples with certain signatures in study view and enrichments test would be more accurate.

[ ] extend generic assay to support categorical data cBioPortal/icebox#222
[x] import binary mutational signature data
[ ] table in study view to select samples with signatures (columns: Mutations Signature, #)
[ ] in Comparison/Mutational Signature, switch to use binary data by default (fisher's exact test)

stale[bot] commented 3 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

jjgao commented 3 years ago

We can use the arm-level copy number data as the prototype data for releasing this feature: https://github.com/cBioPortal/icebox/issues/332

stale[bot] commented 3 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

stale[bot] commented 3 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

stale[bot] commented 3 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

stale[bot] commented 2 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

stale[bot] commented 2 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.