Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Constraint for mitochondrial genes #1451

Open
wants to merge 12 commits into
base: main
Choose a base branch
from
Open

Constraint for mitochondrial genes #1451

wants to merge 12 commits into from

Commits on Jun 4, 2024

  1. Add mitochondrial constraint to API

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    501b60b View commit details
    Browse the repository at this point in the history

  2. Clean up Gene type a bit 

    We're about to extend this type so it's a good juncture to catch up on some small fixes in this area.
    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    3248ed8 View commit details
    Browse the repository at this point in the history

  3. Characterize existing RMC track before refactoring

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    07fcdf8 View commit details
    Browse the repository at this point in the history

  4. Generalize RegionalMissenseConstraintTrack 

    Here we extract a generic `ConstraintTrack` component from `RegionalMissenseConstraintTrack` so that we can build a mitochondrial constraint track on the new generic component.
    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    89aec0a View commit details
    Browse the repository at this point in the history

  5. Add mitochondrial regional constraint visualizations

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    c1ca289 View commit details
    Browse the repository at this point in the history

  6. Add constraint metrics table for mitochondrial genes

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    309d029 View commit details
    Browse the repository at this point in the history

  7. fixup: obs and exp in table get 2 decimal places when small

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    ce164ec View commit details
    Browse the repository at this point in the history

  8. fixup: make mito constraint metrics more consistent with nuclear

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    d56c15e View commit details
    Browse the repository at this point in the history

  9. fixup: no need to clamp mito regions to CDSes

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    8a9f2c3 View commit details
    Browse the repository at this point in the history

  10. fixup: different title depending on if RNA or protein gene

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    1624dad View commit details
    Browse the repository at this point in the history

  11. fixup: change legend copy

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    e940c8f View commit details
    Browse the repository at this point in the history

  12. fixup: change constraint color in track

    @phildarnowsky-broad
    phildarnowsky-broad committed Jun 4, 2024
    Configuration menu
    Copy the full SHA
    dff7adb View commit details
    Browse the repository at this point in the history