seq2hla — Code Reference
Overview
WDL-based bioinformatics pipeline that extracts HLA/MHC reads from whole-genome CRAM files.
Designed to run on Terra (Cromwell backend) with Google Cloud Storage inputs.
Directory Structure
seq2hla/
├── workflows/
│ └── main.wdl # Entry point workflow
├── tasks/
│ └── cram_to_mhcbam.wdl # Core extraction task
├── inputs/
│ └── inputs.json # Input template (GCS paths)
├── tools/ # Empty
├── RE
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<small>This is a companion discussion topic for the original entry at <a href='https://dockstore.org/workflows/github.com/skoyama2/seq2hla'>github.com/skoyama2/seq2hla</a></small>