ITADN

Integrate seqOutBias for enzymatic bias correction

#211Openedmundmiller 创建于 2025-07-13
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edmundmillercommented
## Summary Add optional seqOutBias integration for correcting T4 RNA Ligase and other enzymatic biases in nascent RNA data. ## Features to implement - Optional seqOutBias bias correction - Tallymer index support for k-mer counting - Bias-corrected bigWig generation - Configurable k-mer length support ## Implementation details - Add seqOutBias to container/conda environment - Create bias correction module with tallymer integration - Make bias correction optional via params - Generate both raw and bias-corrected tracks ## Acceptance criteria - [ ] seqOutBias integration working - [ ] Tallymer index generation - [ ] Optional bias correction parameter - [ ] Both corrected and uncorrected outputs - [ ] 15-20% improvement in peak calling accuracy ## References - PEPPRO bias correction implementation
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