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

Delete duplicate layer in AnnData objects #759

Merged
merged 21 commits into from
May 9, 2024
Merged

Delete duplicate layer in AnnData objects #759

merged 21 commits into from
May 9, 2024

Commits on Apr 24, 2024

  1. add boolean for if clusters exist

    @allyhawkins
    allyhawkins committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    7b99606 View commit details
    Browse the repository at this point in the history

  2. account for missing predictions

    @allyhawkins
    allyhawkins committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    1a7a282 View commit details
    Browse the repository at this point in the history

Commits on Apr 25, 2024

  1. move addition of has_clusters to correct report

    @allyhawkins
    allyhawkins committed Apr 25, 2024
    Configuration menu
    Copy the full SHA
    8d5799f View commit details
    Browse the repository at this point in the history

  2. put clusters definition into main report

    @allyhawkins
    allyhawkins committed Apr 25, 2024
    Configuration menu
    Copy the full SHA
    1ff240c View commit details
    Browse the repository at this point in the history

  3. make sure has_celltypes is in supplemental

    @allyhawkins
    allyhawkins committed Apr 25, 2024
    Configuration menu
    Copy the full SHA
    2d3d30f View commit details
    Browse the repository at this point in the history

  4. only create supplemental if > 1 cell in object

    @allyhawkins
    allyhawkins committed Apr 25, 2024
    Configuration menu
    Copy the full SHA
    c74328a View commit details
    Browse the repository at this point in the history

  5. Apply suggestions from code review 

    Co-authored-by: Joshua Shapiro <josh.shapiro@ccdatalab.org>
    @allyhawkins @jashapiro
    allyhawkins and jashapiro authored Apr 25, 2024
    Configuration menu
    Copy the full SHA
    ca62f47 View commit details
    Browse the repository at this point in the history

  6. Merge pull request #755 from AlexsLemonade/allyhawkins/no-clusters 

    Fix bugs for dealing with processed objects with only 1 cell
    @allyhawkins
    allyhawkins authored Apr 25, 2024
    Configuration menu
    Copy the full SHA
    d5ff33b View commit details
    Browse the repository at this point in the history

Commits on Apr 29, 2024

  1. Define umap point size when creating cell type umaps

    @allyhawkins
    allyhawkins committed Apr 29, 2024
    Configuration menu
    Copy the full SHA
    40b3bca View commit details
    Browse the repository at this point in the history

  2. move umap point sizes to child reports and set default to 1

    @allyhawkins
    allyhawkins committed Apr 29, 2024
    Configuration menu
    Copy the full SHA
    0e3b01c View commit details
    Browse the repository at this point in the history

  3. Merge pull request #756 from AlexsLemonade/allyhawkins/define-umap-po… 

    …int-sizes

Define umap point size when creating cell type umaps
    @allyhawkins
    allyhawkins authored Apr 29, 2024
    Configuration menu
    Copy the full SHA
    65738c9 View commit details
    Browse the repository at this point in the history

Commits on May 1, 2024

  1. unlist adt list

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    6d1fc1d View commit details
    Browse the repository at this point in the history

  2. make sure that processed file isn't empty

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    41738f0 View commit details
    Browse the repository at this point in the history

  3. add warning for libraries not included in merging

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    854bb93 View commit details
    Browse the repository at this point in the history

  4. specify branch

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    fad0236 View commit details
    Browse the repository at this point in the history

  5. remove multiplexed

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    57630da View commit details
    Browse the repository at this point in the history

  6. use map_lgl

    @allyhawkins
    allyhawkins committed May 1, 2024
    Configuration menu
    Copy the full SHA
    bb515c6 View commit details
    Browse the repository at this point in the history

Commits on May 2, 2024

  1. drop file 

    Co-authored-by: Joshua Shapiro <josh.shapiro@ccdatalab.org>
    @allyhawkins @jashapiro
    allyhawkins and jashapiro authored May 2, 2024
    Configuration menu
    Copy the full SHA
    6629141 View commit details
    Browse the repository at this point in the history

  2. Merge pull request #757 from AlexsLemonade/allyhawkins/merge-bug-fixes 

    Fix some merge bugs
    @allyhawkins
    allyhawkins authored May 2, 2024
    Configuration menu
    Copy the full SHA
    a9dc826 View commit details
    Browse the repository at this point in the history

Commits on May 8, 2024

  1. Merge branch 'main' into jashapiro/nextgen-containers

    @jashapiro
    jashapiro committed May 8, 2024
    Configuration menu
    Copy the full SHA
    49b5ecc View commit details
    Browse the repository at this point in the history

Commits on May 9, 2024

  1. delete logcounts layer

    @jashapiro
    jashapiro committed May 9, 2024
    Configuration menu
    Copy the full SHA
    17e3663 View commit details
    Browse the repository at this point in the history