Skip to content

Lk aou mito post processing#1807

Merged
ekiernan merged 13 commits intodevelopfrom
lk-aou-mito-post-processing
Apr 2, 2026
Merged

Lk aou mito post processing#1807
ekiernan merged 13 commits intodevelopfrom
lk-aou-mito-post-processing

Conversation

@ekiernan
Copy link
Copy Markdown
Contributor

@ekiernan ekiernan commented Apr 2, 2026

This PR adds a WDL for running aou mitochondria post processing, which includes generating the QC plots and additional filtering to produce a vcf with numt false positive warning as well as sample metadata with coverage metrics, contamination metrics and haplogroups.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

Remember to squash merge!

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

Copy link
Copy Markdown
Member

@jessicaway jessicaway left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Looks good 1 minor comment

Comment thread verification/test-wdls/scripts/test_mito_post_processing_wdl_hail_logic.py Outdated
@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

Remember to squash merge!

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

Remember to squash merge!

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

Remember to squash merge!

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

@github-actions
Copy link
Copy Markdown

github-actions bot commented Apr 2, 2026

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

@ekiernan ekiernan merged commit 6072ef1 into develop Apr 2, 2026
10 checks passed
@ekiernan ekiernan deleted the lk-aou-mito-post-processing branch April 6, 2026 12:53
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

3 participants