Add analysis and proposal for primer trimming tags #66
+473
−0
Conversation
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
This commit adds comprehensive analysis of different approaches for adding primer/adapter trimming tags to BAM files in the aa-tRNA-seq pipeline. Key points: - Analyzed 5 different approaches for storing adapter information - Recommend adding custom BAM tags (ts, te, a5, a3) to store tRNA boundaries and actual adapter lengths - Non-destructive approach preserves alignments needed for Remora - Handles truncated adapters correctly - Provides implementation plan with code examples Files added: - .github-issue-primer-trimming-tags.md: Detailed technical analysis - ISSUE_PRIMER_TRIMMING_TAGS.md: GitHub issue formatted proposal
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
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Outdated suggestions cannot be applied.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.
This commit adds comprehensive analysis of different approaches for
adding primer/adapter trimming tags to BAM files in the aa-tRNA-seq
pipeline.
Key points:
boundaries and actual adapter lengths
Files added: