Merged
Conversation
…noise Added module calculate_noise
…ectduplexseqmetrics Feature/fgbio collectduplexseqmetrics
…b.com/mikefeixu/modules into feature/fgbio_collectduplexseqmetrics
…ectduplexseqmetrics Make parameter interval_list optional.
This reverts commit 7dc8245.
- Removed double file call - Fixed SV fasta reference
…antigen_images Feature/update neoantigen images
When sample_trees is empty (e.g., when PhyloWGS is skipped), the mutation frequency lists remain empty. This caused: - np.mean([0, 0, ...]) to return 0 - 1 / 0 to raise ZeroDivisionError This change adds guards to return 0 for Effective_N when: - No variances can be computed (empty mutations list) - Average variance is 0 or NaN (empty sample_trees) Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
…y-sample-trees Guard compute_effective_sample_size against empty sample_trees
buehlere
requested review from
johnoooh,
nikhil and
pintoa1-mskcc
as code owners
fix code owners
…e_0.3.0_tests Fix tests for release 0.3.0
Update release candidate with fixes
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
5 participants
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
PR checklist
Closes #225, #227, #219
.github/workflows/nf-test.ymlagainst nf-core'snf-test.yml:NXF_VERhas changed, and update..githubdirectory