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

Draft bed2zarr code #281

Draft
wants to merge 6 commits into
base: main
Choose a base branch
from
Draft

Draft bed2zarr code #281

wants to merge 6 commits into from
+556 −1

Commits on Sep 17, 2024

  1. Draft bed2zarr code 

    Draft code to convert Bed3-format to Zarr.
    @percyfal
    percyfal committed Sep 17, 2024
    Configuration menu
    Copy the full SHA
    8e97bc3 View commit details
    Browse the repository at this point in the history

  2. Fix bed2zarr call

    @percyfal
    percyfal committed Sep 17, 2024
    Configuration menu
    Copy the full SHA
    49b6f6a View commit details
    Browse the repository at this point in the history

  3. Rename zarr_field to bed_array

    @percyfal
    percyfal committed Sep 17, 2024
    Configuration menu
    Copy the full SHA
    1c195c6 View commit details
    Browse the repository at this point in the history

Commits on Sep 18, 2024

  1. Refactor bed2zarr code base 

    - use pandas for reading
- write to isolated zarr archive
- map BED columns to arrays named after BED specification (hts-specs)
    @percyfal
    percyfal committed Sep 18, 2024
    Configuration menu
    Copy the full SHA
    1e3efa1 View commit details
    Browse the repository at this point in the history

Commits on Sep 20, 2024

  1. Add initial support for BED3-BED12 

    - guess BED file type
- add draft schema
- add tests
    @percyfal
    percyfal committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    f94234e View commit details
    Browse the repository at this point in the history

  2. Minor refactorization

    @percyfal
    percyfal committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    aff19f2 View commit details
    Browse the repository at this point in the history